Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 75 of 208
Found at i:27009263 original size:14 final size:14
Alignment explanation
Indices: 27009217--27009257 Score: 59
Period size: 13 Copynumber: 3.1 Consensus size: 14
27009207 ATTTTATTCT
27009217 TAATAAATATTTAA
1 TAATAAATATTTAA
*
27009231 -ATTAAATATTTAA
1 TAATAAATATTTAA
27009244 TAATAAA-ATTTAA
1 TAATAAATATTTAA
27009257 T
1 T
27009258 TGATAATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 19 0.79
14 5 0.21
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
TAATAAATATTTAA
Found at i:27014712 original size:15 final size:15
Alignment explanation
Indices: 27014680--27014728 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
27014670 TACTTTAATC
27014680 ATGGATTAGTATTT-T
1 ATGG-TTAGTATTTAT
27014695 ATGGTTAGTATTTAT
1 ATGGTTAGTATTTAT
* *
27014710 ATGGTAATGTATATAT
1 ATGGTTA-GTATTTAT
27014726 ATG
1 ATG
27014729 TGTGCATGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
14 9 0.30
15 11 0.37
16 10 0.33
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (15 bp):
ATGGTTAGTATTTAT
Found at i:27015035 original size:47 final size:47
Alignment explanation
Indices: 27014966--27015175 Score: 327
Period size: 47 Copynumber: 4.5 Consensus size: 47
27014956 GAGTAAATGA
27014966 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
1 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
*
27015013 ATGTATATGCTATCAAATTTTGATGTACAAATGCAGTCCAATTATATAT
1 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAA-T-TATAT
*
27015062 ATGTATATGCTGTCAAA-TTTGATGTACAAATGCAGTCCAATTATTT
1 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
*
27015108 ATGTATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATT-T-T
1 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
* *
27015153 GTATATATGCTGTCTAAATTTTG
1 ATGTATATGCTGTC-AAATTTTG
27015176 GTGTGAAAAT
Statistics
Matches: 153, Mismatches: 6, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
45 13 0.08
46 30 0.20
47 65 0.42
48 24 0.16
49 21 0.14
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (47 bp):
ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
Found at i:27015130 original size:95 final size:93
Alignment explanation
Indices: 27014966--27015173 Score: 330
Period size: 95 Copynumber: 2.2 Consensus size: 93
27014956 GAGTAAATGA
27014966 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATATATGTATATGCTATCAAAT
1 ATGTATATGCTGTCAAA-TTTGATGTACAAATGCAGTCCAATTATATATGTATATGCTATCAAAT
27015031 TTTGATGTACAAATGCAGTCCAATTATATAT
65 TTTGATGTACAAATGCAGTCCAATT-T-TAT
* *
27015062 ATGTATATGCTGTCAAATTTGATGTACAAATGCAGTCCAATTATTTATGTATATGCTGTCAAATT
1 ATGTATATGCTGTCAAATTTGATGTACAAATGCAGTCCAATTATATATGTATATGCTATCAAATT
* *
27015127 TTGATGTATAAATGCAGTCCAATTTTGT
66 TTGATGTACAAATGCAGTCCAATTTTAT
27015155 A--TATATGCTGTCTAAATTT
1 ATGTATATGCTGTC-AAATTT
27015174 TGGTGTGAAA
Statistics
Matches: 107, Mismatches: 4, Indels: 6
0.91 0.03 0.05
Matches are distributed among these distances:
91 11 0.10
92 6 0.06
93 3 0.03
94 1 0.01
95 69 0.64
96 17 0.16
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.40
Consensus pattern (93 bp):
ATGTATATGCTGTCAAATTTGATGTACAAATGCAGTCCAATTATATATGTATATGCTATCAAATT
TTGATGTACAAATGCAGTCCAATTTTAT
Found at i:27015203 original size:46 final size:45
Alignment explanation
Indices: 27014969--27015205 Score: 214
Period size: 47 Copynumber: 5.1 Consensus size: 45
27014959 TAAATGAATG
* *
27014969 TATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTAT-ATA
1 TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATT-TGGTA
* * **
27015014 TGTATATGCTATCAAATTTTGATGTACAAATGCAGTCCAATTATATATA
1 --TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATT-T-GGTA
* *
27015063 TGTATATGCTGTCAAA-TTTGATGTACAAATGCAGTCCAATTAT-TTA
1 --TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATT-TGGTA
*
27015109 TGTATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTTTGTA
1 --TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTTGGTA
* * *
27015156 TATATGCTGTCTAAATTTTGGTGTGA-AAATGCTA-TCTAGTTTGGTA
1 TATATGCTGTC-AAATTTTGATGT-ATAAATGC-AGTCCAATTTGGTA
27015202 TATA
1 TATA
27015206 AATGCAGTTC
Statistics
Matches: 174, Mismatches: 9, Indels: 15
0.88 0.05 0.08
Matches are distributed among these distances:
45 11 0.06
46 49 0.28
47 69 0.40
48 27 0.16
49 18 0.10
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.41
Consensus pattern (45 bp):
TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTTGGTA
Found at i:27015787 original size:42 final size:43
Alignment explanation
Indices: 27015633--27015818 Score: 257
Period size: 43 Copynumber: 4.3 Consensus size: 43
27015623 GTTTTTCGAA
*
27015633 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTACC
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCC
* *
27015676 ACAAACGCCACTAAAGACCAAGACCTTTAGCGGCGCTTTTTCC
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCC
* * *
27015719 ACAAATGCCGCTATAGACCACGACCTTTAGCGGCGCTTTTCCC
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCC
* * * * *
27015762 ACAAATGCCGCTATAGAACAA-ACCTTTAGCGGCGCTTCTCGC
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCC
*
27015804 AAAAACGCCGCTAAA
1 ACAAACGCCGCTAAA
27015819 AATATAACCT
Statistics
Matches: 129, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
42 31 0.24
43 98 0.76
ACGTcount: A:0.30, C:0.32, G:0.18, T:0.20
Consensus pattern (43 bp):
ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCC
Found at i:27016181 original size:19 final size:19
Alignment explanation
Indices: 27016159--27016224 Score: 62
Period size: 19 Copynumber: 3.3 Consensus size: 19
27016149 ACAGTAATGA
27016159 AAAATTAAACACCACACAT
1 AAAATTAAACACCACACAT
* * *
27016178 AAAATTACACAAACAGTAACGA-
1 AAAATTAAAC-ACCA--CAC-AT
27016200 AAAATTAAACACCACACAT
1 AAAATTAAACACCACACAT
27016219 AAAATT
1 AAAATT
27016225 TATCAAACTA
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
18 1 0.03
19 17 0.47
20 3 0.08
21 3 0.08
22 11 0.31
23 1 0.03
ACGTcount: A:0.59, C:0.21, G:0.03, T:0.17
Consensus pattern (19 bp):
AAAATTAAACACCACACAT
Found at i:27016232 original size:41 final size:41
Alignment explanation
Indices: 27016143--27016224 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
27016133 AAAAATTAAA
* *
27016143 ACACAGACAGTAATGAAAAATTAAACACCACACATAAAATT
1 ACACAAACAGTAACGAAAAATTAAACACCACACATAAAATT
27016184 ACACAAACAGTAACGAAAAATTAAACACCACACATAAAATT
1 ACACAAACAGTAACGAAAAATTAAACACCACACATAAAATT
27016225 TATCAAACTA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.57, C:0.21, G:0.06, T:0.16
Consensus pattern (41 bp):
ACACAAACAGTAACGAAAAATTAAACACCACACATAAAATT
Found at i:27018704 original size:3 final size:3
Alignment explanation
Indices: 27018698--27018725 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
27018688 CAACAGAATC
27018698 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
27018726 AACTAGTGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:27019701 original size:20 final size:18
Alignment explanation
Indices: 27019645--27019702 Score: 55
Period size: 20 Copynumber: 3.1 Consensus size: 18
27019635 TATCAAATTT
*
27019645 AAATAAATAAATTTTAAA
1 AAATTAATAAATTTTAAA
*
27019663 AATTTAAGT-AATATTTAAA
1 AAATTAA-TAAAT-TTTAAA
27019682 AGAATTAGATAAATTTTAAA
1 A-AATTA-ATAAATTTTAAA
27019702 A
1 A
27019703 TTTGTATATA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
18 8 0.25
19 8 0.25
20 12 0.38
21 4 0.12
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (18 bp):
AAATTAATAAATTTTAAA
Found at i:27019851 original size:13 final size:13
Alignment explanation
Indices: 27019833--27019859 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
27019823 ATTGTCAATC
27019833 TGTTACATTAATT
1 TGTTACATTAATT
27019846 TGTTACATTAATT
1 TGTTACATTAATT
27019859 T
1 T
27019860 ATTTATTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.56
Consensus pattern (13 bp):
TGTTACATTAATT
Found at i:27020353 original size:7 final size:7
Alignment explanation
Indices: 27020343--27020387 Score: 63
Period size: 7 Copynumber: 6.4 Consensus size: 7
27020333 CACTAACTCT
*
27020343 TAACCTC
1 TAACCCC
27020350 TAACCCC
1 TAACCCC
27020357 TAACCCC
1 TAACCCC
27020364 TAACCCC
1 TAACCCC
**
27020371 TAACTAC
1 TAACCCC
27020378 TAACCCC
1 TAACCCC
27020385 TAA
1 TAA
27020388 ATCTTATTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.33, C:0.47, G:0.00, T:0.20
Consensus pattern (7 bp):
TAACCCC
Found at i:27020490 original size:96 final size:97
Alignment explanation
Indices: 27020344--27020522 Score: 238
Period size: 96 Copynumber: 1.9 Consensus size: 97
27020334 ACTAACTCTT
* * * *
27020344 AACCTCTAACCCCTAACCCCTAACCCCTAACTACTAACCCCTAAATCTTATTTAATATACAAATT
1 AACCTCTAACCCCTAACCCCGAACCCCTAACCACTAACCCCTAAACCTTATTCAATAT--AAATT
27020409 AAAAAACACTAATTAATCTAGACTCTAAATCCTC
64 AAAAAACACTAATTAATCTAGACTCTAAATCCTC
* * * *
27020443 AACC-CTAA-CCCTAA-CCCGAATCCCTAACCCCTAACCCCTACACCTTATTCAATATAAATTAG
1 AACCTCTAACCCCTAACCCCGAACCCCTAACCACTAACCCCTAAACCTTATTCAATATAAATTAA
*
27020505 AACACACTAATTAATCTA
66 AAAACACTAATTAATCTA
27020523 AACCTTAAAC
Statistics
Matches: 71, Mismatches: 9, Indels: 5
0.84 0.11 0.06
Matches are distributed among these distances:
94 23 0.32
96 34 0.48
97 6 0.08
98 4 0.06
99 4 0.06
ACGTcount: A:0.40, C:0.33, G:0.02, T:0.26
Consensus pattern (97 bp):
AACCTCTAACCCCTAACCCCGAACCCCTAACCACTAACCCCTAAACCTTATTCAATATAAATTAA
AAAACACTAATTAATCTAGACTCTAAATCCTC
Found at i:27020722 original size:14 final size:14
Alignment explanation
Indices: 27020700--27020736 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
27020690 ATCCTAAATT
27020700 AACCATATACCCTA
1 AACCATATACCCTA
*
27020714 AATCATATACCCTA
1 AACCATATACCCTA
27020728 AACCATATA
1 AACCATATA
27020737 TATTAAACCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.24
Consensus pattern (14 bp):
AACCATATACCCTA
Found at i:27021136 original size:41 final size:41
Alignment explanation
Indices: 27021076--27021315 Score: 372
Period size: 41 Copynumber: 5.9 Consensus size: 41
27021066 AAACGGGCAC
* * * *
27021076 TAGCGGCCCTTTTTAAAAAACGCCACTAAAGGCCCGAGCAT
1 TAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGCAT
* * *
27021117 TAGCGGCGCTTCTTTAAAAACGCCGCTAAAGGTCTGAGCAT
1 TAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGCAT
* * *
27021158 TAGCGGCGCTTATTCAAAAACGCCGCTAAAGGCTCGAGTAT
1 TAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGCAT
*
27021199 TAGCGGCGCTTCTTAAAAAACGCCGCTAAAGGCCCGAGCAT
1 TAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGCAT
*
27021240 TAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGCAT
1 TAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGCAT
27021281 TAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCC
1 TAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCC
27021316 CCAAAACTCA
Statistics
Matches: 180, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 180 1.00
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.20
Consensus pattern (41 bp):
TAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGCAT
Found at i:27021297 original size:123 final size:123
Alignment explanation
Indices: 27021076--27021313 Score: 413
Period size: 123 Copynumber: 1.9 Consensus size: 123
27021066 AAACGGGCAC
* *
27021076 TAGCGGCCCTTTTTAAAAAACGCCACTAAAGGCCCGAGCATTAGCGGCGCTTCTTTAAAAACGCC
1 TAGCGGCCCTTCTTAAAAAACGCCACTAAAGGCCCGAGCATTAGCGGCGCTTCTTCAAAAACGCC
* *
27021141 GCTAAAGGTCTGAGCATTAGCGGCGCTTATTCAAAAACGCCGCTAAAGGCTCGAGTAT
66 GCTAAAGGCCAGAGCATTAGCGGCGCTTATTCAAAAACGCCGCTAAAGGCTCGAGTAT
* *
27021199 TAGCGGCGCTTCTTAAAAAACGCCGCTAAAGGCCCGAGCATTAGCGGCGCTTCTTCAAAAACGCC
1 TAGCGGCCCTTCTTAAAAAACGCCACTAAAGGCCCGAGCATTAGCGGCGCTTCTTCAAAAACGCC
*
27021264 GCTAAAGGCCAGAGCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGC
66 GCTAAAGGCCAGAGCATTAGCGGCGCTTATTCAAAAACGCCGCTAAAGGC
27021314 CCCCAAAACT
Statistics
Matches: 108, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
123 108 1.00
ACGTcount: A:0.29, C:0.28, G:0.24, T:0.20
Consensus pattern (123 bp):
TAGCGGCCCTTCTTAAAAAACGCCACTAAAGGCCCGAGCATTAGCGGCGCTTCTTCAAAAACGCC
GCTAAAGGCCAGAGCATTAGCGGCGCTTATTCAAAAACGCCGCTAAAGGCTCGAGTAT
Found at i:27021425 original size:39 final size:38
Alignment explanation
Indices: 27021351--27021484 Score: 144
Period size: 40 Copynumber: 3.4 Consensus size: 38
27021341 GGGCTTAGGC
*
27021351 TTTTT-GCGGCGCTTTTCAAAAAACGCCGCTAATGCTTA
1 TTTTTAGCGGCG-TTTTCAAAAAGCGCCGCTAATGCTTA
* * *
27021389 TTTTTAGCGGTGTTTTCCAAAAAGCGCCGCTGATGCTCGA
1 TTTTTAGCGGCGTTTT-CAAAAAGCGCCGCTAATGCT-TA
** *
27021429 CCTTTAGCGGCGTTTTTATAAAAGCGCCGCTAATGCTTGA
1 TTTTTAGCGGCGTTTTCA-AAAAGCGCCGCTAATGCTT-A
*
27021469 TTTTTAGTGGCGTTTT
1 TTTTTAGCGGCGTTTT
27021485 TTGTTCAAAC
Statistics
Matches: 78, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
38 9 0.12
39 24 0.31
40 45 0.58
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.37
Consensus pattern (38 bp):
TTTTTAGCGGCGTTTTCAAAAAGCGCCGCTAATGCTTA
Found at i:27028711 original size:71 final size:71
Alignment explanation
Indices: 27028625--27028764 Score: 165
Period size: 71 Copynumber: 2.0 Consensus size: 71
27028615 ATCCTCAGAT
* **
27028625 GTTTCATTACCACATATCTA-TAAACTATCAAGCATGCTAGAGAATCTGAAAAATTCAAAGTTAC
1 GTTTCATAACCACATATCTACT-AACTATCAAGCAAACTAGAGAATCTGAAAAATTCAAAGTTAC
27028689 CATAAGC
65 CATAAGC
* * * * * * **
27028696 GTTTCATAACTACATATGTACTGACTATGAAGCAAACTAGAGTATCTGAAGAATTTGAAGTTACC
1 GTTTCATAACCACATATCTACTAACTATCAAGCAAACTAGAGAATCTGAAAAATTCAAAGTTACC
27028761 ATAA
66 ATAA
27028765 ATGCAAAACA
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
71 56 0.98
72 1 0.02
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (71 bp):
GTTTCATAACCACATATCTACTAACTATCAAGCAAACTAGAGAATCTGAAAAATTCAAAGTTACC
ATAAGC
Found at i:27034588 original size:15 final size:15
Alignment explanation
Indices: 27034570--27034620 Score: 70
Period size: 15 Copynumber: 3.4 Consensus size: 15
27034560 CATCAATAAT
27034570 TCATCAATCAACTCA
1 TCATCAATCAACTCA
27034585 TCATCATAATCAA-T-A
1 TCATC--AATCAACTCA
27034600 TCATCAATCAACTCA
1 TCATCAATCAACTCA
27034615 TCATCA
1 TCATCA
27034621 TAGTCAATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
13 6 0.19
14 1 0.03
15 18 0.56
16 1 0.03
17 6 0.19
ACGTcount: A:0.41, C:0.29, G:0.00, T:0.29
Consensus pattern (15 bp):
TCATCAATCAACTCA
Found at i:27034606 original size:30 final size:30
Alignment explanation
Indices: 27034561--27034635 Score: 123
Period size: 30 Copynumber: 2.4 Consensus size: 30
27034551 CACCGCGTTC
27034561 ATCAATAATTCATCAATCAACTCATCATCATA
1 ATCAAT-A-TCATCAATCAACTCATCATCATA
27034593 ATCAATATCATCAATCAACTCATCATCATA
1 ATCAATATCATCAATCAACTCATCATCATA
*
27034623 GTCAATATCATCA
1 ATCAATATCATCA
27034636 TCCTCGATGA
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
30 35 0.83
31 1 0.02
32 6 0.14
ACGTcount: A:0.43, C:0.25, G:0.01, T:0.31
Consensus pattern (30 bp):
ATCAATATCATCAATCAACTCATCATCATA
Found at i:27034632 original size:15 final size:14
Alignment explanation
Indices: 27034559--27034636 Score: 67
Period size: 15 Copynumber: 5.5 Consensus size: 14
27034549 AACACCGCGT
27034559 TCATCA-AT-AAT-
1 TCATCATATCAATA
27034570 TCATCA-ATCAACTCA
1 TCATCATATCAA-T-A
27034585 TCATCATAATCAATA
1 TCATCAT-ATCAATA
27034600 TCATCA-ATCAACTCA
1 TCATCATATCAA-T-A
27034615 TCATCATAGTCAATA
1 TCATCATA-TCAATA
27034630 TCATCAT
1 TCATCAT
27034637 CCTCGATGAT
Statistics
Matches: 57, Mismatches: 0, Indels: 16
0.78 0.00 0.22
Matches are distributed among these distances:
11 8 0.14
12 2 0.04
13 6 0.11
14 1 0.02
15 28 0.49
16 3 0.05
17 9 0.16
ACGTcount: A:0.41, C:0.26, G:0.01, T:0.32
Consensus pattern (14 bp):
TCATCATATCAATA
Found at i:27036926 original size:21 final size:21
Alignment explanation
Indices: 27036900--27036959 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
27036890 TTCTCTAACC
27036900 ATGGTCAAAATTATTTTGAAA
1 ATGGTCAAAATTATTTTGAAA
** *
27036921 ATGGTCAAAATTATAATGGAA
1 ATGGTCAAAATTATTTTGAAA
* *
27036942 GTGGTCAGAATTATTTTG
1 ATGGTCAAAATTATTTTG
27036960 CTGGTCAAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.38, C:0.05, G:0.20, T:0.37
Consensus pattern (21 bp):
ATGGTCAAAATTATTTTGAAA
Found at i:27036982 original size:18 final size:17
Alignment explanation
Indices: 27036942--27036987 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
27036932 TATAATGGAA
* *
27036942 GTGGTCAGAATTATTTT
1 GTGGTCAAAATTATATT
27036959 GCTGGTCAAAATTATGATT
1 G-TGGTCAAAATTAT-ATT
27036978 GTGGTCAAAA
1 GTGGTCAAAA
27036988 GTGGTATGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 1 0.04
18 21 0.84
19 3 0.12
ACGTcount: A:0.30, C:0.09, G:0.24, T:0.37
Consensus pattern (17 bp):
GTGGTCAAAATTATATT
Found at i:27043549 original size:65 final size:65
Alignment explanation
Indices: 27043468--27043600 Score: 257
Period size: 65 Copynumber: 2.0 Consensus size: 65
27043458 GTATTTGACA
27043468 CATAGGATATAACTTTAAAGAATTCTTCATGTACATGAATCAACTTTGAAAAATCTAACCATACC
1 CATAGGATATAACTTTAAAGAATTCTTCATGTACATGAATCAACTTTGAAAAATCTAACCATACC
*
27043533 CATAGGATATAACTTTAAAGAATTCTTCATGTACATGAATCAACTTTGAAAAATCTAACCATGCC
1 CATAGGATATAACTTTAAAGAATTCTTCATGTACATGAATCAACTTTGAAAAATCTAACCATACC
27043598 CAT
1 CAT
27043601 CTATGAATAA
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
65 67 1.00
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.31
Consensus pattern (65 bp):
CATAGGATATAACTTTAAAGAATTCTTCATGTACATGAATCAACTTTGAAAAATCTAACCATACC
Found at i:27043579 original size:31 final size:31
Alignment explanation
Indices: 27043478--27043579 Score: 93
Period size: 31 Copynumber: 3.2 Consensus size: 31
27043468 CATAGGATAT
27043478 AACTTTAAAGAATTCTTCATGTACATGAATC
1 AACTTTAAAGAATTCTTCATGTACATGAATC
* ***
27043509 AACTTTGAAA-AA-TCTAACCATACCCATAGGATAT-
1 AACTTT-AAAGAATTCT--TCATGTACAT--GA-ATC
27043543 AACTTTAAAGAATTCTTCATGTACATGAATC
1 AACTTTAAAGAATTCTTCATGTACATGAATC
27043574 AACTTT
1 AACTTT
27043580 GAAAAATCTA
Statistics
Matches: 54, Mismatches: 8, Indels: 18
0.68 0.10 0.22
Matches are distributed among these distances:
30 5 0.09
31 16 0.30
32 9 0.17
33 9 0.17
34 10 0.19
35 5 0.09
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.33
Consensus pattern (31 bp):
AACTTTAAAGAATTCTTCATGTACATGAATC
Found at i:27044537 original size:21 final size:21
Alignment explanation
Indices: 27044495--27044537 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
27044485 CGAAATATCC
* *
27044495 TGTAATAATAAAATTCTCTCA
1 TGTAATAACAAAATTCCCTCA
27044516 TGTAATAACAAAA-TCCCGTCA
1 TGTAATAACAAAATTCCC-TCA
27044537 T
1 T
27044538 TGTATAAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.33
Consensus pattern (21 bp):
TGTAATAACAAAATTCCCTCA
Found at i:27044827 original size:30 final size:30
Alignment explanation
Indices: 27044791--27044852 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
27044781 CCATTAAAGA
* * *
27044791 AATCTCAACATTTGTATTTGGTGAGATTTG
1 AATCTCAACATTTGCATTTGATAAGATTTG
27044821 AATCTCAACATTTGCATTTGATAAGATTTG
1 AATCTCAACATTTGCATTTGATAAGATTTG
27044851 AA
1 AA
27044853 CCTGTGCCCT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.40
Consensus pattern (30 bp):
AATCTCAACATTTGCATTTGATAAGATTTG
Found at i:27045350 original size:57 final size:57
Alignment explanation
Indices: 27045285--27045394 Score: 193
Period size: 57 Copynumber: 1.9 Consensus size: 57
27045275 AAACTTAATG
27045285 TACCATTATATTAAATTATTTAAATATCGTATAATTTAACTAATTTTAACTTTCATT
1 TACCATTATATTAAATTATTTAAATATCGTATAATTTAACTAATTTTAACTTTCATT
* * *
27045342 TACCATTATATTAAATTATTTAAATCTTGTATAATTTAAGTAATTTTAACTTT
1 TACCATTATATTAAATTATTTAAATATCGTATAATTTAACTAATTTTAACTTT
27045395 AACTTTGTGT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
57 50 1.00
ACGTcount: A:0.38, C:0.09, G:0.03, T:0.50
Consensus pattern (57 bp):
TACCATTATATTAAATTATTTAAATATCGTATAATTTAACTAATTTTAACTTTCATT
Found at i:27048256 original size:30 final size:30
Alignment explanation
Indices: 27048206--27048280 Score: 123
Period size: 30 Copynumber: 2.4 Consensus size: 30
27048196 CACAGCGTTC
*
27048206 ATCAATAATTCATTAATCAACTCATCATCATA
1 ATCAAT-A-TCATCAATCAACTCATCATCATA
27048238 ATCAATATCATCAATCAACTCATCATCATA
1 ATCAATATCATCAATCAACTCATCATCATA
27048268 ATCAATATCATCA
1 ATCAATATCATCA
27048281 TCCTCGATAA
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
30 35 0.83
31 1 0.02
32 6 0.14
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (30 bp):
ATCAATATCATCAATCAACTCATCATCATA
Found at i:27048277 original size:15 final size:17
Alignment explanation
Indices: 27048219--27048281 Score: 84
Period size: 15 Copynumber: 4.1 Consensus size: 17
27048209 AATAATTCAT
27048219 TAATCAACTCATCATCA
1 TAATCAACTCATCATCA
27048236 TAATCAA-T-ATCATC-
1 TAATCAACTCATCATCA
27048250 -AATCAACTCATCATCA
1 TAATCAACTCATCATCA
27048266 TAATCAA-T-ATCATCA
1 TAATCAACTCATCATCA
27048281 T
1 T
27048282 CCTCGATAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
13 6 0.14
14 1 0.02
15 20 0.48
16 2 0.05
17 13 0.31
ACGTcount: A:0.43, C:0.25, G:0.00, T:0.32
Consensus pattern (17 bp):
TAATCAACTCATCATCA
Found at i:27068562 original size:30 final size:31
Alignment explanation
Indices: 27068528--27068629 Score: 116
Period size: 31 Copynumber: 3.3 Consensus size: 31
27068518 GTTACAAAAT
** *
27068528 AGTCATTAAGGTATTTGAAAG-TTTTCATTA
1 AGTCATTAAACTATTTGAAAGCTTTTCTTTA
* * *
27068558 AGTCACTAAATTATTTGAAAGCTTTACTTTA
1 AGTCATTAAACTATTTGAAAGCTTTTCTTTA
* *
27068589 AGTCATTAAACTATTCGAAAGTTTTTCTTTA
1 AGTCATTAAACTATTTGAAAGCTTTTCTTTA
*
27068620 AGTCACTAAA
1 AGTCATTAAA
27068630 TGATTAAGTT
Statistics
Matches: 60, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
30 18 0.30
31 42 0.70
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (31 bp):
AGTCATTAAACTATTTGAAAGCTTTTCTTTA
Found at i:27068593 original size:31 final size:30
Alignment explanation
Indices: 27068539--27068630 Score: 121
Period size: 31 Copynumber: 3.0 Consensus size: 30
27068529 GTCATTAAGG
*
27068539 TATTTGAAAGTTTTCATTAAGTCACTAAAT
1 TATTTGAAAGTTTTCTTTAAGTCACTAAAT
* * *
27068569 TATTTGAAAGCTTTACTTTAAGTCATTAAAC
1 TATTTGAAAG-TTTTCTTTAAGTCACTAAAT
*
27068600 TATTCGAAAGTTTTTCTTTAAGTCACTAAAT
1 TATTTGAAAG-TTTTCTTTAAGTCACTAAAT
27068631 GATTAAGTTT
Statistics
Matches: 52, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
30 10 0.19
31 42 0.81
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.43
Consensus pattern (30 bp):
TATTTGAAAGTTTTCTTTAAGTCACTAAAT
Found at i:27068751 original size:65 final size:65
Alignment explanation
Indices: 27068662--27068785 Score: 203
Period size: 65 Copynumber: 1.9 Consensus size: 65
27068652 TCGACTAACG
* * * *
27068662 AGCTCCAAGCGACTATTCAACAATTGGTATAGTAGACTAGTATTCATCGATAAGTAGAAGAACAT
1 AGCTCCAAGCGACTATTCAACAATTAGTACACTAGACTAGTATTCATCAATAAGTAGAAGAACAT
*
27068727 AGCTCCAAGCGACTATTCAACAATTAGTACACTAGATTAGTATTCATCAATAAGTAGAA
1 AGCTCCAAGCGACTATTCAACAATTAGTACACTAGACTAGTATTCATCAATAAGTAGAA
27068786 CATACCTTAG
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
65 54 1.00
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.27
Consensus pattern (65 bp):
AGCTCCAAGCGACTATTCAACAATTAGTACACTAGACTAGTATTCATCAATAAGTAGAAGAACAT
Found at i:27086065 original size:69 final size:68
Alignment explanation
Indices: 27085954--27086122 Score: 266
Period size: 69 Copynumber: 2.4 Consensus size: 68
27085944 TTCTCCAATA
* *
27085954 TATTAATCACCAATTTATTGAAAGTAAATATTAGTATATATTCCTATCGGGTTAGGTTTAAAGAA
1 TATTAATCA-CAATTTATTGAAAGTAAATATTAATATATATTCCTATCAGGTTAGGTTTAAAGAA
*
27086019 TTTT
65 CTTT
* *
27086023 TATTAATCATCAATTTATTGAAAGTAAATATTAATGTATATTCCTATCAGGTTAGGTTTAAAGTA
1 TATTAATCA-CAATTTATTGAAAGTAAATATTAATATATATTCCTATCAGGTTAGGTTTAAAGAA
27086088 CTTT
65 CTTT
27086092 TATTAATCACAAATTTATTGAAAGTAAATAT
1 TATTAATCAC-AATTTATTGAAAGTAAATAT
27086123 ATGAATTGAT
Statistics
Matches: 93, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
68 1 0.01
69 92 0.99
ACGTcount: A:0.38, C:0.08, G:0.11, T:0.42
Consensus pattern (68 bp):
TATTAATCACAATTTATTGAAAGTAAATATTAATATATATTCCTATCAGGTTAGGTTTAAAGAAC
TTT
Found at i:27091643 original size:15 final size:15
Alignment explanation
Indices: 27091623--27091653 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
27091613 ATATCAGGAA
*
27091623 AAGAAAAAGTAAAAC
1 AAGAAAAAGAAAAAC
27091638 AAGAAAAAGAAAAAC
1 AAGAAAAAGAAAAAC
27091653 A
1 A
27091654 TGAACATGAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.77, C:0.06, G:0.13, T:0.03
Consensus pattern (15 bp):
AAGAAAAAGAAAAAC
Found at i:27097561 original size:46 final size:47
Alignment explanation
Indices: 27097511--27097602 Score: 114
Period size: 46 Copynumber: 2.0 Consensus size: 47
27097501 GTCATTTTTT
* *
27097511 ATTTTTTTTCCAAAAAACCATATTCA-AGCAATCTTTAAGTATGTTC
1 ATTTTTTTCCCAAAAAACCATATTCAGAGAAATCTTTAAGTATGTTC
*** * *
27097557 ATTTTTTTCCCCGCAAACTATATTCAGAGAAATCTTTAAGTGTGTT
1 ATTTTTTTCCCAAAAAACCATATTCAGAGAAATCTTTAAGTATGTT
27097603 TTAGAGAAGA
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
46 21 0.55
47 17 0.45
ACGTcount: A:0.32, C:0.17, G:0.10, T:0.41
Consensus pattern (47 bp):
ATTTTTTTCCCAAAAAACCATATTCAGAGAAATCTTTAAGTATGTTC
Found at i:27102771 original size:73 final size:73
Alignment explanation
Indices: 27102690--27102913 Score: 430
Period size: 73 Copynumber: 3.1 Consensus size: 73
27102680 ATAACTAAAA
*
27102690 AGCAAACGATCATCAAAATCAACTCTAGAACATGATCGTCAATAAACTCAAATTGGCAATTAAAA
1 AGCAAACGATCATCAAAATCAACTCTAGAACATGATCATCAATAAACTCAAATTGGCAATTAAAA
27102755 GAAACTAT
66 GAAACTAT
27102763 AGCAAACGATCATCAAAATCAACTCTAGAACATGATCATCAATAAACTCAAATTGGCAATTAAAA
1 AGCAAACGATCATCAAAATCAACTCTAGAACATGATCATCAATAAACTCAAATTGGCAATTAAAA
27102828 GAAACTAT
66 GAAACTAT
*
27102836 AGCAAACGATAATCAAAATCAACTCTAGAACATGATCATCAATAAACTCAAATTGGCAATTAAAA
1 AGCAAACGATCATCAAAATCAACTCTAGAACATGATCATCAATAAACTCAAATTGGCAATTAAAA
27102901 GAAACTAT
66 GAAACTAT
27102909 AGCAA
1 AGCAA
27102914 CCCCAAGAAT
Statistics
Matches: 149, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 149 1.00
ACGTcount: A:0.50, C:0.19, G:0.10, T:0.21
Consensus pattern (73 bp):
AGCAAACGATCATCAAAATCAACTCTAGAACATGATCATCAATAAACTCAAATTGGCAATTAAAA
GAAACTAT
Found at i:27106757 original size:106 final size:106
Alignment explanation
Indices: 27106572--27106780 Score: 366
Period size: 106 Copynumber: 2.0 Consensus size: 106
27106562 TGCTAGTTAC
27106572 CCTACCATACTCATTCCAAATTCAACTTTCACGAGGTCAAAAAATTCTTAAGAAGCTTTTGAAGA
1 CCTACCATACTCATTCCAAATTCAACTTTCACGAGGTCAAAAAATTCTTAAGAAGCTTTTGAAGA
27106637 AGTGAAATAAAAGAAAAATGTCATCCACATAGATTTGTTCA
66 AGTGAAATAAAAGAAAAATGTCATCCACATAGATTTGTTCA
* * * *
27106678 CCTACCATACTTATTCCAAATTCAGCTTTCACGAGGTCAACAAATTCTTAAGAAGTTTTTGAATG
1 CCTACCATACTCATTCCAAATTCAACTTTCACGAGGTCAAAAAATTCTTAAGAAGCTTTTGAA-G
27106743 -AGTGAAATAAAAGAAAAATGTCATCCACATAGATTTGT
65 AAGTGAAATAAAAGAAAAATGTCATCCACATAGATTTGT
27106781 GCTATTGTGA
Statistics
Matches: 98, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
106 97 0.99
107 1 0.01
ACGTcount: A:0.39, C:0.18, G:0.13, T:0.30
Consensus pattern (106 bp):
CCTACCATACTCATTCCAAATTCAACTTTCACGAGGTCAAAAAATTCTTAAGAAGCTTTTGAAGA
AGTGAAATAAAAGAAAAATGTCATCCACATAGATTTGTTCA
Found at i:27107880 original size:13 final size:13
Alignment explanation
Indices: 27107862--27107887 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27107852 ATTTATTAAG
27107862 ATAGTCTAATAGC
1 ATAGTCTAATAGC
27107875 ATAGTCTAATAGC
1 ATAGTCTAATAGC
27107888 TTATTTGCCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATAGTCTAATAGC
Found at i:27113562 original size:16 final size:17
Alignment explanation
Indices: 27113543--27113580 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
27113533 TGAAGAGTGA
*
27113543 AAAATATTTTAATT-TT
1 AAAATATATTAATTATT
27113559 AAAAT-TATTAATTATT
1 AAAATATATTAATTATT
27113575 AAAATA
1 AAAATA
27113581 ACATAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AAAATATATTAATTATT
Found at i:27124808 original size:17 final size:17
Alignment explanation
Indices: 27124765--27124809 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
27124755 TATAATTAAA
27124765 AATTAAAAATTATTTAT
1 AATTAAAAATTATTTAT
* **
27124782 TATTTTAAATTATTTAT
1 AATTAAAAATTATTTAT
27124799 AATTAAAAATT
1 AATTAAAAATT
27124810 TCTAGTAATA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
AATTAAAAATTATTTAT
Found at i:27125247 original size:21 final size:21
Alignment explanation
Indices: 27125223--27125274 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
27125213 CATTGTTTCT
*
27125223 AATCTCACCGCTACAATATCC
1 AATCTCACCGCTACAATAACC
* *
27125244 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAATAACC
27125265 AATCTCACCG
1 AATCTCACCG
27125275 ACACCGCTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.33, C:0.37, G:0.08, T:0.23
Consensus pattern (21 bp):
AATCTCACCGCTACAATAACC
Found at i:27128014 original size:37 final size:38
Alignment explanation
Indices: 27127976--27128050 Score: 98
Period size: 37 Copynumber: 2.0 Consensus size: 38
27127966 ATTAATTTTT
27127976 AAAATTAAAAAATTAAAAAAATAATAAAAAATA-ATTTA
1 AAAATT-AAAAATTAAAAAAATAATAAAAAATATATTTA
** * *
27128014 AAAATTAAAAATTATTAAAATTATAAAACATATATTT
1 AAAATTAAAAATTAAAAAAATAATAAAAAATATATTT
27128051 TTAATATTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 22 0.69
38 10 0.31
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.32
Consensus pattern (38 bp):
AAAATTAAAAATTAAAAAAATAATAAAAAATATATTTA
Found at i:27130716 original size:19 final size:19
Alignment explanation
Indices: 27130694--27130732 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
27130684 TTTAGTTAGT
27130694 TTATATTTACCTTTTGGAC
1 TTATATTTACCTTTTGGAC
27130713 TTATATTTACCTTTTGGAC
1 TTATATTTACCTTTTGGAC
27130732 T
1 T
27130733 CGGGAAAGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.21, C:0.15, G:0.10, T:0.54
Consensus pattern (19 bp):
TTATATTTACCTTTTGGAC
Found at i:27130874 original size:23 final size:23
Alignment explanation
Indices: 27130831--27130874 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
27130821 CAAATTATCA
* *
27130831 AGAAAAACTTAAAGAGTAAAATT
1 AGAAAAACTTAAACAGGAAAATT
27130854 AGAAAAGA-TTAAACAGGAAAA
1 AGAAAA-ACTTAAACAGGAAAA
27130875 AGAAAACAGC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 17 0.94
24 1 0.06
ACGTcount: A:0.64, C:0.05, G:0.16, T:0.16
Consensus pattern (23 bp):
AGAAAAACTTAAACAGGAAAATT
Found at i:27132699 original size:3 final size:3
Alignment explanation
Indices: 27132691--27132716 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
27132681 AGTAGCAGAA
27132691 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
27132717 CAAACCCCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:27136504 original size:107 final size:108
Alignment explanation
Indices: 27136286--27136490 Score: 328
Period size: 107 Copynumber: 1.9 Consensus size: 108
27136276 TGGATTAAGA
* *
27136286 TTTAAGAGGATATTTGGCTATTTGGTCAAGCGAAAAAAATCGAAACCCAGCACATTAGGGCACGT
1 TTTAAGAGGATATTTGGCTATTTGGTCAAGCGAAAAAAATCAAAACCCAACACATTAGGGCACGT
27136351 TTCCTCGAATTTCCAAATGCAAAATATTGCCTTACTTTGAAAT
66 TTCCTCGAATTTCCAAATGCAAAATATTGCCTTACTTTGAAAT
*
27136394 TTTAA-AGGATATTTGGCTATTTGGTTGAA-CGAAAAAAATCAAAACCCAACACATTAGGGCACG
1 TTTAAGAGGATATTTGGCTATTTGG-TCAAGCGAAAAAAATCAAAACCCAACACATTAGGGCACG
27136457 CTTT-CTCGAA-TTCCTAAATGCAAAATATTGCCTT
65 -TTTCCTCGAATTTCC-AAATGCAAAATATTGCCTT
27136491 TATTATTTTT
Statistics
Matches: 91, Mismatches: 3, Indels: 7
0.90 0.03 0.07
Matches are distributed among these distances:
106 4 0.04
107 76 0.84
108 11 0.12
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.30
Consensus pattern (108 bp):
TTTAAGAGGATATTTGGCTATTTGGTCAAGCGAAAAAAATCAAAACCCAACACATTAGGGCACGT
TTCCTCGAATTTCCAAATGCAAAATATTGCCTTACTTTGAAAT
Found at i:27137467 original size:29 final size:28
Alignment explanation
Indices: 27137430--27137505 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 28
27137420 TATATAGAAG
* *
27137430 CAATTATATAATAATATAATAATAAACAA
1 CAATAATATAAT-ATATAATAAAAAACAA
27137459 CAATAATATAATATAATAATAAAAAACAA
1 CAATAATATAATAT-ATAATAAAAAACAA
**
27137488 GTATAATAATAATTATAT
1 CAATAAT-ATAA-TATAT
27137506 TCATTAATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
28 2 0.05
29 29 0.73
30 6 0.15
31 3 0.08
ACGTcount: A:0.62, C:0.05, G:0.01, T:0.32
Consensus pattern (28 bp):
CAATAATATAATATATAATAAAAAACAA
Found at i:27138199 original size:25 final size:25
Alignment explanation
Indices: 27138171--27138221 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
27138161 TAATATTTCG
* *
27138171 AAAATAAAATAAAAATAACAAAGCA
1 AAAAAAAAACAAAAATAACAAAGCA
*
27138196 AAAAAAAAACAAAAATAAGAAAGCA
1 AAAAAAAAACAAAAATAACAAAGCA
27138221 A
1 A
27138222 CCTTTAAATC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.78, C:0.08, G:0.06, T:0.08
Consensus pattern (25 bp):
AAAAAAAAACAAAAATAACAAAGCA
Found at i:27139268 original size:50 final size:48
Alignment explanation
Indices: 27139214--27139389 Score: 136
Period size: 50 Copynumber: 3.5 Consensus size: 48
27139204 CCAGGAAAGT
* *
27139214 AAGATTCGCCGTTGTGGCTTCAATATTTTAAATTGCAATGTCGGGGAAGC
1 AAGATTCACCGTTGTAGCTTCAAT-TTTT-AATTGCAATGTCGGGGAAGC
* * * * ** * * ** **
27139264 AAGATTCACCATTTTAGCTTCAATTTGTTCCACTGCACCGCCAAGAAAAAT
1 AAGATTCACCGTTGTAGCTTCAATTT-TT-AATTGCAATGTC-GGGGAAGC
* * * *
27139315 AAGATTCTCCGTTGTGGCCTCAATCTTTTAATTGCAATATCGGGGAAGC
1 AAGATTCACCGTTGTAGCTTCAAT-TTTTAATTGCAATGTCGGGGAAGC
27139364 AAGATTCACCGTTGTAGCTTCAATTT
1 AAGATTCACCGTTGTAGCTTCAATTT
27139390 GTTCCACTGC
Statistics
Matches: 89, Mismatches: 34, Indels: 8
0.68 0.26 0.06
Matches are distributed among these distances:
48 2 0.02
49 26 0.29
50 35 0.39
51 24 0.27
52 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.32
Consensus pattern (48 bp):
AAGATTCACCGTTGTAGCTTCAATTTTTAATTGCAATGTCGGGGAAGC
Found at i:27139348 original size:100 final size:99
Alignment explanation
Indices: 27139141--27139447 Score: 389
Period size: 100 Copynumber: 3.1 Consensus size: 99
27139131 CTTCAATCTA
* * * * * * * *
27139141 TTTAACTGCAATGTCGGGGAAGTAAGATTCACTGTCATAGCTTCAATCTATTCCACTACACCACC
1 TTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTATAGCTTCAATTTGTTCCACTGCACCGCC
* * *
27139206 AGGAAAGTAAGATTCGCCGTTGTGGCTTCAATAT
66 AAGAAAATAAGATTCGCCGTTGTGGCATCAATAT
* *
27139240 TTTAAATTGCAATGTCGGGGAAGCAAGATTCACCATTTTAGCTTCAATTTGTTCCACTGCACCGC
1 TTT-AATTGCAATGTCGGGGAAGCAAGATTCACCGTTATAGCTTCAATTTGTTCCACTGCACCGC
* * *
27139305 CAAGAAAAATAAGATTCTCCGTTGTGGCCTCAATCT
65 CAAG-AAAATAAGATTCGCCGTTGTGGCATCAATAT
* * * *
27139341 TTTAATTGCAATATCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATTTGTTCCACTGCATCGCG
1 TTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTATAGCTTCAATTTGTTCCACTGCACCGCC
* * *
27139406 AAGGAAATAAGATTCGCCATTGTGTCATCAATAT
66 AAGAAAATAAGATTCGCCGTTGTGGCATCAATAT
27139440 TTTAATTG
1 TTTAATTG
27139448 AAAACTATGG
Statistics
Matches: 180, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
99 36 0.20
100 114 0.63
101 30 0.17
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (99 bp):
TTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTATAGCTTCAATTTGTTCCACTGCACCGCC
AAGAAAATAAGATTCGCCGTTGTGGCATCAATAT
Found at i:27139615 original size:89 final size:89
Alignment explanation
Indices: 27139455--27139944 Score: 732
Period size: 89 Copynumber: 5.5 Consensus size: 89
27139445 TTGAAAACTA
* * * * *
27139455 TGGTTTCTCCGATCTGCTTCGCCGTCAGTACAGGAAGGCAAGATCTGCTATCTTTAGTCTGCTCC
1 TGGTGTCTTCGATCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCC
*
27139520 GCTGTCAGTACAGGAAGGCAAGGC
66 ACTGTCAGTACAGGAAGGCAAGGC
* * * *
27139544 TGGTGTCTTCGATCTGCTTTGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTTAGTCTGTTCC
1 TGGTGTCTTCGATCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCC
*
27139609 ACTGTCAGTACAGGAAGGCAAGGT
66 ACTGTCAGTACAGGAAGGCAAGGC
* ***
27139633 TGGTGTCTTCGGTCTGCTTCGCCATCAGTACAAGG-AGGCAAGATCTGCTATCTTCAGTCTGCTC
1 TGGTGTCTTCGATCTGCTTCGCTGCCAGTAC-AGGAAGGCAAGATCTGCTATCTTCAGTCTGCTC
*
27139697 CACTG-CAGTACAGGAAGACAAGGC
65 CACTGTCAGTACAGGAAGGCAAGGC
* *
27139721 TGGTGTCTTCGATCTGCTTCACTGCCAGTACAGGAAGGCATGATCTGCTATCTTCAGTCTGCTCC
1 TGGTGTCTTCGATCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCC
* *
27139786 GCTGTCAGTACAGGAAGGTAAGGC
66 ACTGTCAGTACAGGAAGGCAAGGC
* *
27139810 TGGTGTCTTCGATCTGCTTCGCTGCCAGTACAGAAAGGCATGATCTGCTATCTTCAGTCTGCTCC
1 TGGTGTCTTCGATCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCC
*
27139875 ACTGTCAGTACAGGGAGGCAAGGC
66 ACTGTCAGTACAGGAAGGCAAGGC
* *
27139899 TGGTGTCTTCGATCTGCTTCACTGCCAGTACAGGAAAGCAAGATCT
1 TGGTGTCTTCGATCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCT
27139945 ACAACTTCAT
Statistics
Matches: 365, Mismatches: 33, Indels: 6
0.90 0.08 0.01
Matches are distributed among these distances:
87 3 0.01
88 75 0.21
89 284 0.78
90 3 0.01
ACGTcount: A:0.21, C:0.24, G:0.27, T:0.28
Consensus pattern (89 bp):
TGGTGTCTTCGATCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCC
ACTGTCAGTACAGGAAGGCAAGGC
Found at i:27139768 original size:177 final size:177
Alignment explanation
Indices: 27139455--27139944 Score: 748
Period size: 177 Copynumber: 2.8 Consensus size: 177
27139445 TTGAAAACTA
* * *
27139455 TGGTTTCTCCGATCTGCTTCGCCGTCAGTACAGGAAGGCAAGATCTGCTATCTTTAGTCTGCTCC
1 TGGTGTCTTCGATCTGCTTCGCCGTCAGTACAGG-AGGCAAGATCTGCTATCTTCAGTCTGCTCC
* ** *
27139520 GCTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTTGCTGTCAGTACAGGAAGGCAA
65 ACTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGCCAGTACAGGAAGGCAA
* * *
27139585 GATCTGCTATCTTTAGTCTGTTCCACTGTCAGTACAGGAAGGCAAGGT
130 GATCTGCTATCTTCAGTCTGCTCCACTGTCAGTACAGGAAGGCAAGGC
* *
27139633 TGGTGTCTTCGGTCTGCTTCGCCATCAGTACAAGGAGGCAAGATCTGCTATCTTCAGTCTGCTCC
1 TGGTGTCTTCGATCTGCTTCGCCGTCAGTAC-AGGAGGCAAGATCTGCTATCTTCAGTCTGCTCC
* *
27139698 ACTG-CAGTACAGGAAGACAAGGCTGGTGTCTTCGATCTGCTTCACTGCCAGTACAGGAAGGCAT
65 ACTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGCCAGTACAGGAAGGCAA
* *
27139762 GATCTGCTATCTTCAGTCTGCTCCGCTGTCAGTACAGGAAGGTAAGGC
130 GATCTGCTATCTTCAGTCTGCTCCACTGTCAGTACAGGAAGGCAAGGC
* * * *
27139810 TGGTGTCTTCGATCTGCTTCGCTGCCAGTACAGAAAGGCATGATCTGCTATCTTCAGTCTGCTCC
1 TGGTGTCTTCGATCTGCTTCGCCGTCAGTACAG-GAGGCAAGATCTGCTATCTTCAGTCTGCTCC
* *
27139875 ACTGTCAGTACAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGCCAGTACAGGAAAGCAA
65 ACTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGCCAGTACAGGAAGGCAA
27139940 GATCT
130 GATCT
27139945 ACAACTTCAT
Statistics
Matches: 283, Mismatches: 26, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
176 2 0.01
177 158 0.56
178 120 0.42
179 3 0.01
ACGTcount: A:0.21, C:0.24, G:0.27, T:0.28
Consensus pattern (177 bp):
TGGTGTCTTCGATCTGCTTCGCCGTCAGTACAGGAGGCAAGATCTGCTATCTTCAGTCTGCTCCA
CTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGCCAGTACAGGAAGGCAAG
ATCTGCTATCTTCAGTCTGCTCCACTGTCAGTACAGGAAGGCAAGGC
Found at i:27139942 original size:266 final size:266
Alignment explanation
Indices: 27139455--27139944 Score: 766
Period size: 266 Copynumber: 1.8 Consensus size: 266
27139445 TTGAAAACTA
* * * *
27139455 TGGTTTCTCCGATCTGCTTCGCCGTCAGTACAGGAAGGCAAGATCTGCTATCTTTAGTCTGCTCC
1 TGGTGTCTCCGATCTGCTTCACCGCCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCC
* * *
27139520 GCTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTTGCTGTCAGTACAGGAAGGCAA
66 GCTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGCCAGTACAGAAAGGCAA
* * * *
27139585 GATCTGCTATCTTTAGTCTGTTCCACTGTCAGTACAGGAAGGCAAGGTTGGTGTCTTCGGTCTGC
131 GATCTGCTATCTTCAGTCTGCTCCACTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTCGATCTGC
* * *
27139650 TTCGCCATCAGTACAAGGAGGCAAGATCTGCTATCTTCAGTCTGCTCCACTGCAGTACAGGAAGA
196 TTCACCACCAGTACAAGGAAGCAAGATCTGCTATCTTCAGTCTGCTCCACTGCAGTACAGGAAGA
27139715 CAAGGC
261 CAAGGC
* * *
27139721 TGGTGTCTTCGATCTGCTTCACTGCCAGTACAGGAAGGCATGATCTGCTATCTTCAGTCTGCTCC
1 TGGTGTCTCCGATCTGCTTCACCGCCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCC
* *
27139786 GCTGTCAGTACAGGAAGGTAAGGCTGGTGTCTTCGATCTGCTTCGCTGCCAGTACAGAAAGGCAT
66 GCTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGCCAGTACAGAAAGGCAA
*
27139851 GATCTGCTATCTTCAGTCTGCTCCACTGTCAGTACAGGGAGGCAAGGCTGGTGTCTTCGATCTGC
131 GATCTGCTATCTTCAGTCTGCTCCACTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTCGATCTGC
**
27139916 TTCACTGCCAGTAC-AGGAAAGCAAGATCT
196 TTCACCACCAGTACAAGG-AAGCAAGATCT
27139945 ACAACTTCAT
Statistics
Matches: 201, Mismatches: 22, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
265 3 0.01
266 198 0.99
ACGTcount: A:0.21, C:0.24, G:0.27, T:0.28
Consensus pattern (266 bp):
TGGTGTCTCCGATCTGCTTCACCGCCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCC
GCTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGCCAGTACAGAAAGGCAA
GATCTGCTATCTTCAGTCTGCTCCACTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTCGATCTGC
TTCACCACCAGTACAAGGAAGCAAGATCTGCTATCTTCAGTCTGCTCCACTGCAGTACAGGAAGA
CAAGGC
Found at i:27141147 original size:6 final size:6
Alignment explanation
Indices: 27141136--27141207 Score: 85
Period size: 6 Copynumber: 12.0 Consensus size: 6
27141126 TAGCCTCTCC
* *
27141136 TTTTCT TTTTCT TTTTCT TTTTCT TTTTTT CTTTTCT TCTTCT TCTTTC-
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT -TTTTCT TTTTCT T-TTTCT
*
27141185 TTTT-T TCTTCT TTTTCT TTTTCT
1 TTTTCT TTTTCT TTTTCT TTTTCT
27141208 CTCTTTTTTT
Statistics
Matches: 56, Mismatches: 6, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
5 6 0.11
6 42 0.75
7 8 0.14
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTCT
Found at i:27141182 original size:34 final size:34
Alignment explanation
Indices: 27141138--27141215 Score: 72
Period size: 32 Copynumber: 2.2 Consensus size: 34
27141128 GCCTCTCCTT
* *
27141138 TTCTTTTTCTTTTTCTTTTTCTTTTTTTCTTTTCTTC
1 TTCTTTTTCTT-TTCTTCTTC-TTCTTTCTTTT-TTC
27141175 TTCTTCTTTCTTTT-TTCTTCTT-TTTC-TTTTTC
1 TTCTT-TTTCTTTTCTTCTTCTTCTTTCTTTTTTC
27141207 TCTCTTTTT
1 T-TCTTTTT
27141216 TTTAAATATT
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
32 7 0.18
33 7 0.18
34 4 0.11
35 2 0.05
36 5 0.13
37 7 0.18
38 6 0.16
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (34 bp):
TTCTTTTTCTTTTCTTCTTCTTCTTTCTTTTTTC
Found at i:27141184 original size:26 final size:26
Alignment explanation
Indices: 27141136--27141217 Score: 96
Period size: 26 Copynumber: 3.2 Consensus size: 26
27141126 TAGCCTCTCC
*
27141136 TTTTCTTTTTCTTTTTCTT-TTTCTTT
1 TTTTC-TTTTCTTCTTCTTCTTTCTTT
27141162 TTTTCTTTTCTTCTTCTTCTTTC-TT
1 TTTTCTTTTCTTCTTCTTCTTTCTTT
* * *
27141187 TTTTCTTCTTTTTCTTTTTCTCTCTTT
1 TTTTCTT-TTCTTCTTCTTCTTTCTTT
27141214 TTTT
1 TTTT
27141218 TAAATATTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
25 21 0.43
26 22 0.45
27 6 0.12
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (26 bp):
TTTTCTTTTCTTCTTCTTCTTTCTTT
Found at i:27141212 original size:10 final size:9
Alignment explanation
Indices: 27141138--27141215 Score: 67
Period size: 9 Copynumber: 8.9 Consensus size: 9
27141128 GCCTCTCCTT
27141138 TTCTTTTTC
1 TTCTTTTTC
*
27141147 TT-TTTCTTT
1 TTCTTT-TTC
27141156 TTCTTTTT-
1 TTCTTTTTC
27141164 TTC-TTTTC
1 TTCTTTTTC
*
27141172 TTCTTCTTC
1 TTCTTTTTC
27141181 TTTCTTTTTTC
1 -TTC-TTTTTC
27141192 TTCTTTTTC
1 TTCTTTTTC
*
27141201 TT-TTTCTC
1 TTCTTTTTC
27141209 -TCTTTTT
1 TTCTTTTT
27141216 TTTAAATATT
Statistics
Matches: 57, Mismatches: 5, Indels: 15
0.74 0.06 0.19
Matches are distributed among these distances:
7 5 0.09
8 18 0.32
9 20 0.35
10 9 0.16
11 5 0.09
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (9 bp):
TTCTTTTTC
Found at i:27141218 original size:14 final size:14
Alignment explanation
Indices: 27141142--27141218 Score: 83
Period size: 14 Copynumber: 5.6 Consensus size: 14
27141132 CTCCTTTTCT
27141142 TTTTCTTTTTC-T-
1 TTTTCTTTTTCTTC
27141154 TTTTCTTTTT-TTC
1 TTTTCTTTTTCTTC
*
27141167 TTTTCTTCTTCTTC
1 TTTTCTTTTTCTTC
27141181 -TTTCTTTTTTCTTC
1 TTTTC-TTTTTCTTC
27141195 TTTTTCTTTTTCTCTC
1 -TTTTCTTTTTCT-TC
27141211 TTTT-TTTT
1 TTTTCTTTT
27141219 AAATATTTTT
Statistics
Matches: 56, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
12 11 0.20
13 13 0.23
14 15 0.27
15 11 0.20
16 6 0.11
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTCTTTTTCTTC
Found at i:27145645 original size:106 final size:106
Alignment explanation
Indices: 27145515--27145718 Score: 320
Period size: 106 Copynumber: 1.9 Consensus size: 106
27145505 ATAGATTAAG
* * *
27145515 ATTTAAAAGGATATTTTGCTATTTGGTCAAACGAAAAAATCGAAACCCAGCACATTAGGGCAC-G
1 ATTTAAAAGGATATTTGGCTATTTGGTCAAACGAAAAAATCGAAACCCAACACATTAGGGCACAC
*
27145579 TTTCCTCGAATTTCCAAACGCAAAATATTGCCTTACTTTGAA
66 TTT-CTCGAATTCCCAAACGCAAAATATTGCCTTACTTTGAA
* **
27145621 ATTTTAAAGGATATTTGGCTATTTGGTTGAACGAAAAAATCGAAACCCAACACATTAGGGCACAC
1 ATTTAAAAGGATATTTGGCTATTTGGTCAAACGAAAAAATCGAAACCCAACACATTAGGGCACAC
*
27145686 TTTCTCGAATTCCCAAATGCAAAATATTGCCTT
66 TTTCTCGAATTCCCAAACGCAAAATATTGCCTT
27145719 TATCATTTTT
Statistics
Matches: 89, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
106 86 0.97
107 3 0.03
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (106 bp):
ATTTAAAAGGATATTTGGCTATTTGGTCAAACGAAAAAATCGAAACCCAACACATTAGGGCACAC
TTTCTCGAATTCCCAAACGCAAAATATTGCCTTACTTTGAA
Found at i:27146615 original size:14 final size:12
Alignment explanation
Indices: 27146567--27146607 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
27146557 TACATACATG
27146567 TATATAAAT-TA
1 TATATAAATATA
* *
27146578 TAGA-ATATATA
1 TATATAAATATA
27146589 TATATAAATATA
1 TATATAAATATA
27146601 TATATAA
1 TATATAA
27146608 GCGTATATGT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
10 3 0.12
11 8 0.33
12 13 0.54
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (12 bp):
TATATAAATATA
Found at i:27146701 original size:29 final size:28
Alignment explanation
Indices: 27146664--27146739 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 28
27146654 TATATAGAAG
* *
27146664 CAATTATATAATAATATAATAATAAACAA
1 CAATAATATAAT-ATATAATAAAAAACAA
27146693 CAATAATATAATATAATAATAAAAAACAA
1 CAATAATATAATAT-ATAATAAAAAACAA
**
27146722 GTATAATAATAATTATAT
1 CAATAAT-ATAA-TATAT
27146740 TCATTAATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
28 2 0.05
29 29 0.73
30 6 0.15
31 3 0.08
ACGTcount: A:0.62, C:0.05, G:0.01, T:0.32
Consensus pattern (28 bp):
CAATAATATAATATATAATAAAAAACAA
Found at i:27151642 original size:28 final size:28
Alignment explanation
Indices: 27151591--27151645 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
27151581 TGTCCACTTC
**
27151591 TCCCAAATTGGTACTTAGAATTTTTTTG
1 TCCCAAATTGGTACCCAGAATTTTTTTG
27151619 TCCCAAATTGGTACCCA-AACTTTTTTT
1 TCCCAAATTGGTACCCAGAA-TTTTTTT
27151646 CGTCAACAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.08
28 22 0.92
ACGTcount: A:0.25, C:0.20, G:0.11, T:0.44
Consensus pattern (28 bp):
TCCCAAATTGGTACCCAGAATTTTTTTG
Found at i:27153514 original size:23 final size:23
Alignment explanation
Indices: 27153488--27153952 Score: 446
Period size: 23 Copynumber: 20.0 Consensus size: 23
27153478 AGCATATATA
*
27153488 TATATACAAAATTGGATAGCATT
1 TATATACAAAATTGGACAGCATT
* * *
27153511 TATACACCAAAATTTGACAGCATA
1 TATATA-CAAAATTGGACAGCATT
*
27153535 TATATACAAAATTGGACAACATT
1 TATATACAAAATTGGACAGCATT
* *
27153558 TAT-TCACTAAAATTGGGCAGCATA
1 TATAT-AC-AAAATTGGACAGCATT
* * *
27153582 TATATACTAATTTGGACAGCACT
1 TATATACAAAATTGGACAGCATT
* * *
27153605 TATACACAAAATTTGACAGCATG
1 TATATACAAAATTGGACAGCATT
*
27153628 TATATACAAAATTGGACAGCACT
1 TATATACAAAATTGGACAGCATT
* * *
27153651 TATACACAAAATTTGACAGCATG
1 TATATACAAAATTGGACAGCATT
27153674 TATATACAAAATTGGACAGCATT
1 TATATACAAAATTGGACAGCATT
* * * *
27153697 TATACACTAAAATTGGGCAGCGTA
1 TATATAC-AAAATTGGACAGCATT
* * *
27153721 TATATACCAATTTGGACAGCACT
1 TATATACAAAATTGGACAGCATT
* * * *
27153744 TATACACAAAATTTGACAACATG
1 TATATACAAAATTGGACAGCATT
27153767 TATATACAAAATTGGACAGCATT
1 TATATACAAAATTGGACAGCATT
* * *
27153790 TATACACTAAAATTGGGCAGCATA
1 TATATAC-AAAATTGGACAGCATT
* * *
27153814 TATATACCAATTTGGACAGCACT
1 TATATACAAAATTGGACAGCATT
* * * *
27153837 TATACACAAAAATTGGGCAGCGTA
1 TATATAC-AAAATTGGACAGCATT
* * *
27153861 TATATACCAATTTGGACAGCACT
1 TATATACAAAATTGGACAGCATT
* * *
27153884 TATACACAAAATTTGACAGCATA
1 TATATACAAAATTGGACAGCATT
27153907 TATATACAAAATTGGACAGCATT
1 TATATACAAAATTGGACAGCATT
* *
27153930 TATACACCAAAATTGGGCAGCAT
1 TATATA-CAAAATTGGACAGCAT
27153953 ATATTCGATT
Statistics
Matches: 345, Mismatches: 89, Indels: 15
0.77 0.20 0.03
Matches are distributed among these distances:
22 1 0.00
23 236 0.68
24 107 0.31
25 1 0.00
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.28
Consensus pattern (23 bp):
TATATACAAAATTGGACAGCATT
Found at i:27153558 original size:47 final size:47
Alignment explanation
Indices: 27153448--27153956 Score: 596
Period size: 47 Copynumber: 10.8 Consensus size: 47
27153438 TCTACCCTAT
* *
27153448 TTGGACAGCTCTTATACATCAAAATT-GAGCAGCATATATATATATACAAAA
1 TTGGACAGCACTTATACACCAAAATTGGA-CAGC----ATATATATACAAAA
* * *
27153499 TTGGATAGCATTTATACACCAAAATTTGACAGCATATATATACAAAA
1 TTGGACAGCACTTATACACCAAAATTGGACAGCATATATATACAAAA
* * * * * * *
27153546 TTGGACAACATTTATTCACTAAAATTGGGCAGCATATATATACTAAT
1 TTGGACAGCACTTATACACCAAAATTGGACAGCATATATATACAAAA
* *
27153593 TTGGACAGCACTTATACA-CAAAATTTGACAGCATGTATATACAAAA
1 TTGGACAGCACTTATACACCAAAATTGGACAGCATATATATACAAAA
* *
27153639 TTGGACAGCACTTATACA-CAAAATTTGACAGCATGTATATACAAAA
1 TTGGACAGCACTTATACACCAAAATTGGACAGCATATATATACAAAA
* * * * * *
27153685 TTGGACAGCATTTATACACTAAAATTGGGCAGCGTATATATACCAAT
1 TTGGACAGCACTTATACACCAAAATTGGACAGCATATATATACAAAA
* * *
27153732 TTGGACAGCACTTATACA-CAAAATTTGACAACATGTATATACAAAA
1 TTGGACAGCACTTATACACCAAAATTGGACAGCATATATATACAAAA
* * * * *
27153778 TTGGACAGCATTTATACACTAAAATTGGGCAGCATATATATACCAAT
1 TTGGACAGCACTTATACACCAAAATTGGACAGCATATATATACAAAA
* * * * *
27153825 TTGGACAGCACTTATACACAAAAATTGGGCAGCGTATATATACCAAT
1 TTGGACAGCACTTATACACCAAAATTGGACAGCATATATATACAAAA
*
27153872 TTGGACAGCACTTATACA-CAAAATTTGACAGCATATATATACAAAA
1 TTGGACAGCACTTATACACCAAAATTGGACAGCATATATATACAAAA
* *
27153918 TTGGACAGCATTTATACACCAAAATTGGGCAGCATATAT
1 TTGGACAGCACTTATACACCAAAATTGGACAGCATATAT
27153957 TCGATTTTTG
Statistics
Matches: 396, Mismatches: 58, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
46 161 0.41
47 207 0.52
51 26 0.07
52 2 0.01
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (47 bp):
TTGGACAGCACTTATACACCAAAATTGGACAGCATATATATACAAAA
Found at i:27153639 original size:93 final size:92
Alignment explanation
Indices: 27153448--27153956 Score: 640
Period size: 93 Copynumber: 5.4 Consensus size: 92
27153438 TCTACCCTAT
* * *
27153448 TTGGACAGCTCTTATACATCAAAATTGAGCAGCATATATATATATACAAAATTGGATAGCATTTA
1 TTGGACAGCACTTATACA-CAAAATTGGGCAGC----ATATATATACAAAATTGGACAGCATTTA
27153513 TACACCAAAATTTGACAGCATATATATACAAAA
61 TACA-CAAAATTTGACAGCATATATATACAAAA
* * * * * *
27153546 TTGGACAACATTTATTCACTAAAATTGGGCAGCATATATATACTAATTTGGACAGCACTTATACA
1 TTGGACAGCACTTATACAC-AAAATTGGGCAGCATATATATACAAAATTGGACAGCATTTATACA
*
27153611 CAAAATTTGACAGCATGTATATACAAAA
65 CAAAATTTGACAGCATATATATACAAAA
* * *
27153639 TTGGACAGCACTTATACACAAAATTTGACAGCATGTATATACAAAATTGGACAGCATTTATACAC
1 TTGGACAGCACTTATACACAAAATTGGGCAGCATATATATACAAAATTGGACAGCATTTATACAC
* * * * *
27153704 TAAAATTGGGCAGCGTATATATACCAAT
66 -AAAATTTGACAGCATATATATACAAAA
* * * *
27153732 TTGGACAGCACTTATACACAAAATTTGACAACATGTATATACAAAATTGGACAGCATTTATACAC
1 TTGGACAGCACTTATACACAAAATTGGGCAGCATATATATACAAAATTGGACAGCATTTATACAC
* * * *
27153797 TAAAATTGGGCAGCATATATATACCAAT
66 -AAAATTTGACAGCATATATATACAAAA
* * * *
27153825 TTGGACAGCACTTATACACAAAAATTGGGCAGCGTATATATACCAATTTGGACAGCACTTATACA
1 TTGGACAGCACTTATACAC-AAAATTGGGCAGCATATATATACAAAATTGGACAGCATTTATACA
27153890 CAAAATTTGACAGCATATATATACAAAA
65 CAAAATTTGACAGCATATATATACAAAA
*
27153918 TTGGACAGCATTTATACACCAAAATTGGGCAGCATATAT
1 TTGGACAGCACTTATACA-CAAAATTGGGCAGCATATAT
27153957 TCGATTTTTG
Statistics
Matches: 366, Mismatches: 41, Indels: 13
0.87 0.10 0.03
Matches are distributed among these distances:
92 40 0.11
93 232 0.63
94 67 0.18
97 1 0.00
98 26 0.07
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (92 bp):
TTGGACAGCACTTATACACAAAATTGGGCAGCATATATATACAAAATTGGACAGCATTTATACAC
AAAATTTGACAGCATATATATACAAAA
Found at i:27154911 original size:43 final size:43
Alignment explanation
Indices: 27154845--27154960 Score: 148
Period size: 43 Copynumber: 2.7 Consensus size: 43
27154835 AACTCGTACA
* * *
27154845 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATA-TCG
1 ATGCCAACGTCCCAAACGTGGTCTTACACGTAAACACA-AGTCG
27154888 ATGCC-ACTGTCCCAAACAG-GGTCTTACACGTAAACACAAGTCG
1 ATGCCAAC-GTCCCAAAC-GTGGTCTTACACGTAAACACAAGTCG
*
27154931 ATGCCAACGTCCCAGACGTGGTCTTACACG
1 ATGCCAACGTCCCAAACGTGGTCTTACACG
27154961 ATAGTACATA
Statistics
Matches: 64, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
42 4 0.06
43 57 0.89
44 3 0.05
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (43 bp):
ATGCCAACGTCCCAAACGTGGTCTTACACGTAAACACAAGTCG
Found at i:27160207 original size:27 final size:27
Alignment explanation
Indices: 27160177--27160279 Score: 120
Period size: 27 Copynumber: 3.8 Consensus size: 27
27160167 CACCCTGGTC
*
27160177 GTGCCAAGGTGATTGGCGGCACCAAAG
1 GTGCCAAGGTGATTGGCGGCACCAATG
* **
27160204 GTGCCAATGTGATTGATGGCACCAATG
1 GTGCCAAGGTGATTGGCGGCACCAATG
*
27160231 GTGCCAAGG-GCATTGGCGGCACCAGTG
1 GTGCCAAGGTG-ATTGGCGGCACCAATG
*
27160258 GTGCCATA-CTGATTGGCGGCAC
1 GTGCCA-AGGTGATTGGCGGCAC
27160280 TACTCGTGTT
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
26 1 0.02
27 61 0.95
28 2 0.03
ACGTcount: A:0.22, C:0.23, G:0.35, T:0.19
Consensus pattern (27 bp):
GTGCCAAGGTGATTGGCGGCACCAATG
Found at i:27160532 original size:3 final size:3
Alignment explanation
Indices: 27160526--27160551 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
27160516 AGTATTATTA
27160526 TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT
27160552 AGTATTAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:27163613 original size:11 final size:11
Alignment explanation
Indices: 27163597--27163623 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
27163587 GCTTATGCTT
27163597 AAATTGTATCC
1 AAATTGTATCC
27163608 AAATTGTATCC
1 AAATTGTATCC
27163619 AAATT
1 AAATT
27163624 AAGTTATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.41, C:0.15, G:0.07, T:0.37
Consensus pattern (11 bp):
AAATTGTATCC
Found at i:27167159 original size:21 final size:21
Alignment explanation
Indices: 27167135--27167202 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
27167125 CCTTCCTTCC
27167135 CTCTTCTTCTTCTTTTTTTTT
1 CTCTTCTTCTTCTTTTTTTTT
* * *
27167156 CTCTTCTCCTTTCCTTTTCTTT
1 CTCTTCTTC-TTCTTTTTTTTT
*
27167178 C-CTTCTTTTTCTTTCTTTTTT
1 CTCTTCTTCTTCTTT-TTTTTT
27167199 CTCT
1 CTCT
27167203 CCTTTCCTCT
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
20 5 0.14
21 19 0.51
22 13 0.35
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (21 bp):
CTCTTCTTCTTCTTTTTTTTT
Found at i:27167170 original size:5 final size:5
Alignment explanation
Indices: 27167162--27167320 Score: 75
Period size: 5 Copynumber: 32.6 Consensus size: 5
27167152 TTTTCTCTTC
* * * * * *
27167162 TCCTT TCCTT TTCTT TCC-T TCTTT TTCTT TCTTTT TTCTC TCCTT TCCTCT
1 TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT TC-CTT TCCTT TCCTT TCCT-T
* * * *
27167213 T-CTT CTTCTT TCATT T-TTT TCTCTT CTCCTT TCCTT TTCTT TCC-T
1 TCCTT -TCCTT TCCTT TCCTT TC-CTT -TCCTT TCCTT TCCTT TCCTT
* * * * *
27167258 TCTTT TTCTT T-CTT TCCTC TCCTT TCCTT TTCTT TCTTT TCCTT T-CTT
1 TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT
27167306 T-CTT T-CTT T-CTT TCC
1 TCCTT TCCTT TCCTT TCC
27167321 CTCTCCTTCT
Statistics
Matches: 116, Mismatches: 27, Indels: 22
0.70 0.16 0.13
Matches are distributed among these distances:
4 30 0.26
5 71 0.61
6 13 0.11
7 2 0.02
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.67
Consensus pattern (5 bp):
TCCTT
Found at i:27167192 original size:4 final size:4
Alignment explanation
Indices: 27167171--27167319 Score: 71
Period size: 4 Copynumber: 36.0 Consensus size: 4
27167161 CTCCTTTCCT
* *
27167171 TTTC TTTC CTTC -TT- TTTC TTTC TTT- TTTC TCTCC TTTCC TCTTC -TTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC T-TTC TTT-C T-TTC TTTC
* * *
27167218 -TTC TTTC ATTTT TTTC TCTTC -TCC TTTCC TTTTC TTTC CTTC -TT-
1 TTTC TTTC -TTTC TTTC T-TTC TTTC TTT-C -TTTC TTTC TTTC TTTC
*
27167262 TTTC TTTC TTTCC TCTCC TTTCC TTTTC TTTC TTTTCC TTTC TTTC TTTC
1 TTTC TTTC TTT-C T-TTC TTT-C -TTTC TTTC -TTT-C TTTC TTTC TTTC
27167312 TTTC TTTC
1 TTTC TTTC
27167320 CCTCTCCTTC
Statistics
Matches: 115, Mismatches: 10, Indels: 40
0.70 0.06 0.24
Matches are distributed among these distances:
3 19 0.17
4 60 0.52
5 26 0.23
6 10 0.09
ACGTcount: A:0.01, C:0.31, G:0.00, T:0.68
Consensus pattern (4 bp):
TTTC
Found at i:27167243 original size:77 final size:74
Alignment explanation
Indices: 27167103--27167291 Score: 287
Period size: 77 Copynumber: 2.6 Consensus size: 74
27167093 ATAATAAAAA
* *
27167103 TTTCCTTTTTTTTCTTT-TTTTTCCT-TCCTTCCCTCTTCTTCTTCTTTTTTTTTCTCTTCTCCT
1 TTTCCTTCTTTTTCTTTCTTTTTCCTCTCCTTTCCTCTTCTTCTTCTTTTTTTTTCTCTTCTCCT
27167166 TTCCTTTTC
66 TTCCTTTTC
*
27167175 TTTCCTTCTTTTTCTTTCTTTTTTCTCTCCTTTCCTCTTCTTCTTCTTTCATTTTTTTCTCTTCT
1 TTTCCTTCTTTTTCTTTCTTTTTCCTCTCCTTTCCTCTTCTTCTTC-TT--TTTTTTTCTCTTCT
27167240 CCTTTCCTTTTC
63 CCTTTCCTTTTC
*
27167252 TTTCCTTCTTTTTCTTTC--TTTCCTCTCCTTTCCTTTTCTT
1 TTTCCTTCTTTTTCTTTCTTTTTCCTCTCCTTTCCTCTTCTT
27167292 TCTTTTCCTT
Statistics
Matches: 107, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
72 16 0.15
73 7 0.07
74 18 0.17
75 22 0.21
77 44 0.41
ACGTcount: A:0.01, C:0.31, G:0.00, T:0.68
Consensus pattern (74 bp):
TTTCCTTCTTTTTCTTTCTTTTTCCTCTCCTTTCCTCTTCTTCTTCTTTTTTTTTCTCTTCTCCT
TTCCTTTTC
Found at i:27167256 original size:10 final size:10
Alignment explanation
Indices: 27167164--27167320 Score: 85
Period size: 10 Copynumber: 16.6 Consensus size: 10
27167154 TTCTCTTCTC
27167164 CTTTCCTTTT
1 CTTTCCTTTT
27167174 CTTTCCTTCTT
1 CTTTCCTT-TT
27167185 -TTT-C-TTT
1 CTTTCCTTTT
27167192 C-TT--TTTT
1 CTTTCCTTTT
* *
27167199 CTCTCCTTTC
1 CTTTCCTTTT
27167209 CTCTT-CTTCTT
1 CT-TTCCTT-TT
*
27167220 CTTTCATTTT
1 CTTTCCTTTT
*
27167230 -TTTCTCTTCTC
1 CTTTC-CTT-TT
27167241 CTTTCCTTTT
1 CTTTCCTTTT
27167251 CTTTCCTTCTT
1 CTTTCCTT-TT
27167262 -TTT-C-TTT
1 CTTTCCTTTT
* *
27167269 CTTTCCTCTC
1 CTTTCCTTTT
27167279 CTTTCCTTTT
1 CTTTCCTTTT
27167289 CTTT-CTTTT
1 CTTTCCTTTT
27167298 CCTTT-C-TTT
1 -CTTTCCTTTT
27167307 CTTT-C-TTT
1 CTTTCCTTTT
27167315 CTTTCC
1 CTTTCC
27167321 CTCTCCTTCT
Statistics
Matches: 117, Mismatches: 12, Indels: 37
0.70 0.07 0.22
Matches are distributed among these distances:
7 10 0.09
8 18 0.15
9 16 0.14
10 55 0.47
11 14 0.12
12 4 0.03
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.68
Consensus pattern (10 bp):
CTTTCCTTTT
Found at i:27167392 original size:27 final size:27
Alignment explanation
Indices: 27167362--27167440 Score: 122
Period size: 27 Copynumber: 2.9 Consensus size: 27
27167352 CATTATAGGC
* *
27167362 TTGGTGCCGCCAATCCCCTTCGCACCA
1 TTGGTGCCGCCAATCACCTTGGCACCA
* *
27167389 TTGGTGCCGCCAATCACATTGGCACCT
1 TTGGTGCCGCCAATCACCTTGGCACCA
27167416 TTGGTGCCGCCAATCACCTTGGCAC
1 TTGGTGCCGCCAATCACCTTGGCAC
27167441 GACCAAGGTG
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.16, C:0.38, G:0.22, T:0.24
Consensus pattern (27 bp):
TTGGTGCCGCCAATCACCTTGGCACCA
Found at i:27168100 original size:43 final size:43
Alignment explanation
Indices: 27168032--27168141 Score: 107
Period size: 43 Copynumber: 2.6 Consensus size: 43
27168022 TTTTCGTGTT
* * * * *
27168032 AGACCACGTCTAGGAC-GTTGACATCGACCTGTGTTTACTTGTA
1 AGACCACGTCTGGGACAG-TGGCATCGACATGTGATTACATGTA
* **
27168075 AGAACC-TGTCTGGGACAGTGGCATCGGTATGTGATTACATGTA
1 AG-ACCACGTCTGGGACAGTGGCATCGACATGTGATTACATGTA
*
27168118 AGACCACGTCTGGGACATTGGCAT
1 AGACCACGTCTGGGACAGTGGCAT
27168142 TGTACAAGCT
Statistics
Matches: 54, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
42 3 0.06
43 47 0.87
44 4 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (43 bp):
AGACCACGTCTGGGACAGTGGCATCGACATGTGATTACATGTA
Found at i:27181136 original size:30 final size:30
Alignment explanation
Indices: 27181102--27181187 Score: 127
Period size: 30 Copynumber: 2.9 Consensus size: 30
27181092 GTCACCACGA
* *
27181102 ACCATTTTCCGTTACAGACGTAACGGAACT
1 ACCATTTTTCGTTACAGACTTAACGGAACT
*
27181132 ACCATTTTTCATTACAGACTTAACGGAACT
1 ACCATTTTTCGTTACAGACTTAACGGAACT
* *
27181162 CCCATTTTTCGTTATAGACTTAACGG
1 ACCATTTTTCGTTACAGACTTAACGG
27181188 GGTTTCCATT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (30 bp):
ACCATTTTTCGTTACAGACTTAACGGAACT
Found at i:27184574 original size:66 final size:66
Alignment explanation
Indices: 27184468--27184600 Score: 266
Period size: 66 Copynumber: 2.0 Consensus size: 66
27184458 AAGATTGCCT
27184468 TTAGAAACATCTGTTGTGGGCAGGGGGAGTATTAATGGTTCCATTAATTCTTCAAGAGTCTTTGT
1 TTAGAAACATCTGTTGTGGGCAGGGGGAGTATTAATGGTTCCATTAATTCTTCAAGAGTCTTTGT
27184533 C
66 C
27184534 TTAGAAACATCTGTTGTGGGCAGGGGGAGTATTAATGGTTCCATTAATTCTTCAAGAGTCTTTGT
1 TTAGAAACATCTGTTGTGGGCAGGGGGAGTATTAATGGTTCCATTAATTCTTCAAGAGTCTTTGT
27184599 C
66 C
27184600 T
1 T
27184601 CATGAATATT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 67 1.00
ACGTcount: A:0.24, C:0.14, G:0.26, T:0.37
Consensus pattern (66 bp):
TTAGAAACATCTGTTGTGGGCAGGGGGAGTATTAATGGTTCCATTAATTCTTCAAGAGTCTTTGT
C
Found at i:27193202 original size:16 final size:15
Alignment explanation
Indices: 27193154--27193203 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 15
27193144 TATTTAATTT
27193154 AAAT-TTTATGAAAGTA
1 AAATATTTATGAAA--A
27193170 AAATATTTATGTAAAA
1 AAATATTTATG-AAAA
*
27193186 ATATATTTATGAAAA
1 AAATATTTATGAAAA
27193201 AAA
1 AAA
27193204 AAAGCACAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
15 6 0.20
16 15 0.50
17 6 0.20
18 3 0.10
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (15 bp):
AAATATTTATGAAAA
Found at i:27195117 original size:22 final size:21
Alignment explanation
Indices: 27195092--27195134 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
27195082 ATGTAAAAAT
27195092 TAAAA-AAAATTGATTGAAATTG
1 TAAAATAAAATT-ATT-AAATTG
27195114 TAAAATTAAAATTATTAAATT
1 TAAAA-TAAAATTATTAAATT
27195135 ATGGTGGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 10 0.53
23 3 0.16
24 6 0.32
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (21 bp):
TAAAATAAAATTATTAAATTG
Found at i:27200180 original size:20 final size:21
Alignment explanation
Indices: 27200137--27200181 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
27200127 ACCCTATTAT
* * *
27200137 TTTTGTTGTTGTTTTTCCATA
1 TTTTGCTGTTATTTTCCCATA
27200158 TTTTGCTGTTATTTTCCCA-A
1 TTTTGCTGTTATTTTCCCATA
27200178 TTTT
1 TTTT
27200182 TGCCACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.11, C:0.13, G:0.11, T:0.64
Consensus pattern (21 bp):
TTTTGCTGTTATTTTCCCATA
Found at i:27201556 original size:16 final size:16
Alignment explanation
Indices: 27201535--27201576 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
27201525 AATAATTTGA
*
27201535 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
27201551 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
27201567 TAGTTTTAAT
1 TAATTTTAAT
27201577 TTTATCAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:27205570 original size:24 final size:24
Alignment explanation
Indices: 27205542--27205593 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
27205532 TTTCTAGAAG
* *
27205542 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
*
27205566 ATTTAGCATTTATTAGCATAATTT
1 ATTTAGCATTTATTAGCATAATAT
27205590 ATTT
1 ATTT
27205594 GATTTACTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.54
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:27209754 original size:47 final size:47
Alignment explanation
Indices: 27209703--27209842 Score: 244
Period size: 47 Copynumber: 3.0 Consensus size: 47
27209693 CCTAAGAATA
* *
27209703 CTATCTATACTTAGTATTGGACAACGGAGAAAATCAGGGAGATCGAT
1 CTATCTATACTTAGTATCGGACAACGAAGAAAATCAGGGAGATCGAT
*
27209750 CTATCTATACTTAGTATCGGACAACAAAGAAAATCAGGGAGATCGAT
1 CTATCTATACTTAGTATCGGACAACGAAGAAAATCAGGGAGATCGAT
*
27209797 CTATCTATACTTAGTATCGGACATCGAAGAAAATCAGGGAGATCGA
1 CTATCTATACTTAGTATCGGACAACGAAGAAAATCAGGGAGATCGA
27209843 ATTGCAATTA
Statistics
Matches: 88, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 88 1.00
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.24
Consensus pattern (47 bp):
CTATCTATACTTAGTATCGGACAACGAAGAAAATCAGGGAGATCGAT
Found at i:27213622 original size:10 final size:10
Alignment explanation
Indices: 27213609--27213633 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
27213599 TTTTTTGATT
27213609 TTTTTAGTGC
1 TTTTTAGTGC
27213619 TTTTTAGTGC
1 TTTTTAGTGC
27213629 TTTTT
1 TTTTT
27213634 TGTTTTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.08, G:0.16, T:0.68
Consensus pattern (10 bp):
TTTTTAGTGC
Found at i:27215374 original size:18 final size:19
Alignment explanation
Indices: 27215353--27215411 Score: 61
Period size: 18 Copynumber: 3.2 Consensus size: 19
27215343 AATATTTTCT
27215353 TTAAATAATTA-AAAATAG
1 TTAAATAATTATAAAATAG
* *
27215371 TTAATTAATTATTATAATA-
1 TTAAATAATTA-TAAAATAG
27215390 TTAAAT-ATTAATAAAATAG
1 TTAAATAATT-ATAAAATAG
27215409 TTA
1 TTA
27215412 TTTATAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
18 19 0.58
19 9 0.27
20 5 0.15
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.42
Consensus pattern (19 bp):
TTAAATAATTATAAAATAG
Found at i:27215512 original size:20 final size:20
Alignment explanation
Indices: 27215476--27215513 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
27215466 TAGGAATCTA
*
27215476 ATTAAATTAGTCCATTTACT
1 ATTAAATTAGTCAATTTACT
27215496 ATTAAA-TAGATCAATTTA
1 ATTAAATTAG-TCAATTTA
27215514 GTCCCCACAC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.42, C:0.11, G:0.05, T:0.42
Consensus pattern (20 bp):
ATTAAATTAGTCAATTTACT
Found at i:27216418 original size:7 final size:7
Alignment explanation
Indices: 27216402--27216432 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
27216392 TTTTTCTTTC
*
27216402 TTTAACT
1 TTTAATT
27216409 TTTAATT
1 TTTAATT
27216416 TTTAATT
1 TTTAATT
27216423 TTTAATT
1 TTTAATT
27216430 TTT
1 TTT
27216433 CATCTGTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTAATT
Found at i:27218191 original size:2 final size:2
Alignment explanation
Indices: 27218186--27218227 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
27218176 CTCCCTTCGT
27218186 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
27218228 CATGTACACA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:27218263 original size:4 final size:4
Alignment explanation
Indices: 27218248--27218304 Score: 105
Period size: 4 Copynumber: 14.2 Consensus size: 4
27218238 TTTCTTTGTG
*
27218248 TGTA TATA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
27218296 TGTA TGTA T
1 TGTA TGTA T
27218305 ATATATAAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 51 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (4 bp):
TGTA
Found at i:27219775 original size:2 final size:2
Alignment explanation
Indices: 27219768--27219801 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
27219758 ACATGATTTG
*
27219768 CT CT CT CT CT CT CT CT CT TT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
27219802 TTATATATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
CT
Found at i:27222043 original size:24 final size:26
Alignment explanation
Indices: 27221980--27222045 Score: 66
Period size: 24 Copynumber: 2.6 Consensus size: 26
27221970 CTTATATAAA
*
27221980 AATAAATTTAAAAATATAATGTATATT
1 AATAAA-TTAAAAATATAATATATATT
* *
27222007 AA-AAATATTAAAATA-AATAT-TTTT
1 AATAAAT-TAAAAATATAATATATATT
27222031 AATAAATTAAAAATA
1 AATAAATTAAAAATA
27222046 CTATTAAAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
24 12 0.36
25 9 0.27
26 10 0.30
27 2 0.06
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (26 bp):
AATAAATTAAAAATATAATATATATT
Found at i:27224518 original size:35 final size:35
Alignment explanation
Indices: 27224478--27224549 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
27224468 AATATTAATT
27224478 AATTTATTATATACGAATGTTTAAAAAATTAATAA
1 AATTTATTATATACGAATGTTTAAAAAATTAATAA
27224513 AATTTATTATATACGAATGTTTAAAAAATTAATAA
1 AATTTATTATATACGAATGTTTAAAAAATTAATAA
27224548 AA
1 AA
27224550 ATTAACATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.39
Consensus pattern (35 bp):
AATTTATTATATACGAATGTTTAAAAAATTAATAA
Found at i:27226643 original size:54 final size:54
Alignment explanation
Indices: 27226579--27226690 Score: 206
Period size: 54 Copynumber: 2.1 Consensus size: 54
27226569 TGACCAAAAC
*
27226579 ATAAACTTACTAATCGTTTAGTGACTTTAGGTGTAATTTACCCTTTATTTTATA
1 ATAAACTTACTAATAGTTTAGTGACTTTAGGTGTAATTTACCCTTTATTTTATA
*
27226633 ATAAACTTACTAATAGTTTAGTGACTTTAGGTGTAATTTATCCTTTATTTTATA
1 ATAAACTTACTAATAGTTTAGTGACTTTAGGTGTAATTTACCCTTTATTTTATA
27226687 ATAA
1 ATAA
27226691 GATAATATTA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (54 bp):
ATAAACTTACTAATAGTTTAGTGACTTTAGGTGTAATTTACCCTTTATTTTATA
Found at i:27226883 original size:22 final size:23
Alignment explanation
Indices: 27226856--27226911 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
27226846 TTATACTTTA
*
27226856 ATTAAATATTCATA-TTTATATT
1 ATTAAATATTCATATTTTATAAT
*
27226878 ATTAAATATTTTATATTTTATAAT
1 ATTAAATA-TTCATATTTTATAAT
*
27226902 ATAAAATATT
1 ATTAAATATT
27226912 TTTACTAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
22 8 0.28
23 7 0.24
24 14 0.48
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.54
Consensus pattern (23 bp):
ATTAAATATTCATATTTTATAAT
Found at i:27226892 original size:17 final size:17
Alignment explanation
Indices: 27226870--27226903 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
27226860 AATATTCATA
27226870 TTTATATTATTA-AATAT
1 TTTATATT-TTATAATAT
27226887 TTTATATTTTATAATAT
1 TTTATATTTTATAATAT
27226904 AAAATATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.19
17 13 0.81
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTATATTTTATAATAT
Found at i:27227267 original size:21 final size:21
Alignment explanation
Indices: 27227214--27227254 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
27227204 GTTACTTATG
27227214 GACTTATATTTTTCAAAAAAT
1 GACTTATATTTTTCAAAAAAT
27227235 GACTTATATTTTTCAAAAAA
1 GACTTATATTTTTCAAAAAA
27227255 GAAATTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (21 bp):
GACTTATATTTTTCAAAAAAT
Found at i:27228283 original size:109 final size:110
Alignment explanation
Indices: 27228163--27228376 Score: 288
Period size: 110 Copynumber: 2.0 Consensus size: 110
27228153 TTATATCTTC
** * * *** *
27228163 ATAATTTTTAAAGGGTTTA-ATAAAATTTTTATCGTTTTT-GAGCGGTAAAGTACAATTTTACCA
1 ATAATTTTTAAACAG-TTAGATAAAATTTTTATCATTTTTAAAAAAGTAAAGTAAAATTTTACCA
*
27228226 TTACTAATTTAAAGTTTTATAAATTATAAAAGGTTTAAATTGATTT
65 TTACTAATTTAAAATTTTATAAATTATAAAAGGTTTAAATTGATTT
** * *
27228272 ATAATTTTTAAACAGTTAGATCGAATTTTTATCATTTTTAAAAAATTAAAGTAAAATTTTATCAT
1 ATAATTTTTAAACAGTTAGATAAAATTTTTATCATTTTTAAAAAAGTAAAGTAAAATTTTACCAT
27228337 TACTAATTTAAAATTTTATAAATTATAAAAGGTTTAAATT
66 TACTAATTTAAAATTTTATAAATTATAAAAGGTTTAAATT
27228377 ACAATTTTAA
Statistics
Matches: 90, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
108 3 0.03
109 30 0.33
110 57 0.63
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.45
Consensus pattern (110 bp):
ATAATTTTTAAACAGTTAGATAAAATTTTTATCATTTTTAAAAAAGTAAAGTAAAATTTTACCAT
TACTAATTTAAAATTTTATAAATTATAAAAGGTTTAAATTGATTT
Found at i:27228668 original size:31 final size:32
Alignment explanation
Indices: 27228632--27228709 Score: 124
Period size: 31 Copynumber: 2.5 Consensus size: 32
27228622 TAAATATATA
27228632 TTTTTTATTTTTAAAAATA-TTTTAAAATACT
1 TTTTTTATTTTTAAAAATATTTTTAAAATACT
27228663 TTTTTTATTTTT-AAAATATTTTTAAAATACT
1 TTTTTTATTTTTAAAAATATTTTTAAAATACT
*
27228694 TTTTTAATTTTCTAAA
1 TTTTTTATTTT-TAAA
27228710 TTTTTTTGGT
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
30 6 0.14
31 34 0.79
32 1 0.02
33 2 0.05
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (32 bp):
TTTTTTATTTTTAAAAATATTTTTAAAATACT
Found at i:27251071 original size:107 final size:106
Alignment explanation
Indices: 27250917--27251131 Score: 286
Period size: 107 Copynumber: 2.0 Consensus size: 106
27250907 CAAAAAAATT
* ** * ** *
27250917 TTTCATTTTGAACAAAATGACGTCGTTTTGTTATGCTAAAATTTTTTTAATTTATTTTTTTATAT
1 TTTCATTTTCAACAAAATGACACCGTTTTGCTATGCTAAAAAATTTTTAATTTATTTTTTTATAA
* * *
27250982 ATTGATTTGTTTTTTGCGGCGTTTTTTATAAAAACGCCGCTA
66 ATTGATTTATTTTTTGCGGCG-TTTTAAAAAAAACGCCGCTA
* * *
27251024 TTTCATTTTCAGCAAAATGACACCGTTTTGCTATGTTAAAAAATTTTTATTTTATTTTTTTATAA
1 TTTCATTTTCAACAAAATGACACCGTTTTGCTATGCTAAAAAATTTTTAATTTATTTTTTTATAA
* *
27251089 ATTGATTTATTTTTTGTGGCGTTTTAAAAAAAATGCCGCTA
66 ATTGATTTATTTTTTGCGGCGTTTTAAAAAAAACGCCGCTA
27251130 TT
1 TT
27251132 GCTTACCTTT
Statistics
Matches: 93, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
106 19 0.20
107 74 0.80
ACGTcount: A:0.27, C:0.10, G:0.12, T:0.50
Consensus pattern (106 bp):
TTTCATTTTCAACAAAATGACACCGTTTTGCTATGCTAAAAAATTTTTAATTTATTTTTTTATAA
ATTGATTTATTTTTTGCGGCGTTTTAAAAAAAACGCCGCTA
Found at i:27251321 original size:108 final size:107
Alignment explanation
Indices: 27251176--27251374 Score: 326
Period size: 108 Copynumber: 1.9 Consensus size: 107
27251166 GCAAAAAAAT
* ** * *
27251176 TTTCATTTTGAACAAAATGACGTCGTTTTGCTATGCTAAAAATTTTTTATTTTATTTTTTTATAT
1 TTTCATTTTCAACAAAATGACACCGTTTTGCTATGCTAAAAAATTTTTATTTTA-TTTTTTATAA
*
27251241 ATTGATTTGTTTTTTGCGGCGTTTTTTTATAAAAACGCCGCTA
65 ATTGATTTATTTTTTGCGGCGTTTTTTTATAAAAACGCCGCTA
*
27251284 TTTCATTTTCAGCAAAATGACACCGTTTTGCTATGCTAAAAAATTTTTATTTTATTTTTTATAAA
1 TTTCATTTTCAACAAAATGACACCGTTTTGCTATGCTAAAAAATTTTTATTTTATTTTTTATAAA
27251349 TTGATTTATTTTTTGCGGCGTTTTTT
66 TTGATTTATTTTTTGCGGCGTTTTTT
27251375 GCTTACCTTT
Statistics
Matches: 84, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
107 35 0.42
108 49 0.58
ACGTcount: A:0.25, C:0.11, G:0.12, T:0.52
Consensus pattern (107 bp):
TTTCATTTTCAACAAAATGACACCGTTTTGCTATGCTAAAAAATTTTTATTTTATTTTTTATAAA
TTGATTTATTTTTTGCGGCGTTTTTTTATAAAAACGCCGCTA
Found at i:27251372 original size:259 final size:243
Alignment explanation
Indices: 27251130--27251606 Score: 735
Period size: 244 Copynumber: 1.9 Consensus size: 243
27251120 AATGCCGCTA
*
27251130 TTGCTTACCTTTAGCGGCGGTTTTTTGATAAACGCCGCAAAAAAA-TTTTCATTTTGAACAAAAT
1 TTGCTTACCTTTAGCGGCGGTTTTTTGAGAAACGCCGCAAAAAAATTTTTCATTTTGAACAAAAT
27251194 GACGTCGTTTTGCTATGCTAAAAATTTTTTATTTTATTTTTTTATATATTGATTTGTTTTTTGCG
66 GACGTCGTTTTGCTATGCTAAAAATTTTTTATTTTATTTTTTTATATATTGATTTGTTTTTTGCG
27251259 GCGTTTTTTTATAAAAACGCCGCTATTTCATTTTCAGCAAAATGACACCGTTTTGCTATGCTAAA
131 GCG-TTTTTTATAAAAACGCCGCTATTTCATTTTCAGCAAAATGACACCGTTTTGCTATGCTAAA
27251324 AAATTTTTATTTTATTTTTTATAAATTGATTTATTTTTTGCGGCGTTTT
195 AAATTTTTATTTTATTTTTTATAAATTGATTTATTTTTTGCGGCGTTTT
*
27251373 TTGCTTACCTTTAGCGGC-GTTTTTATGAGAAACGCCGCAAAAAAATTTTTCATTTTGAACAAAG
1 TTGCTTACCTTTAGCGGCGGTTTTT-TGAGAAACGCCGCAAAAAAATTTTTCATTTTGAACAAAA
* *
27251437 TGACGCCGTTTTGCTATGCTAAAAATTTTTTATTTTATTTTTTATATATATTGATTTGTTTTTAG
65 TGACGTCGTTTTGCTATGCTAAAAATTTTTTATTTTATTTTTT-TATATATTGATTTGTTTTTTG
* * * * * *
27251502 TGGCG-TTTTTATGAGAAACGCCGCAAAAAATTTTTCATTTTGAACAAAATGACGCCGTTTTGCT
129 CGGCGTTTTTTAT-AAAAACGCCGC------TATTTCATTTTCAGCAAAATGACACCGTTTTGCT
*
27251566 ATGCTAAAAATTTTTTATTTTTATTTTTTATAAATTGATTT
187 ATGCTAAAAAATTTTTA-TTTTATTTTTTATAAATTGATTT
27251607 CTTATAATAA
Statistics
Matches: 212, Mismatches: 11, Indels: 14
0.89 0.05 0.06
Matches are distributed among these distances:
242 6 0.03
243 44 0.21
244 69 0.33
245 24 0.11
250 46 0.22
251 23 0.11
ACGTcount: A:0.27, C:0.12, G:0.14, T:0.47
Consensus pattern (243 bp):
TTGCTTACCTTTAGCGGCGGTTTTTTGAGAAACGCCGCAAAAAAATTTTTCATTTTGAACAAAAT
GACGTCGTTTTGCTATGCTAAAAATTTTTTATTTTATTTTTTTATATATTGATTTGTTTTTTGCG
GCGTTTTTTATAAAAACGCCGCTATTTCATTTTCAGCAAAATGACACCGTTTTGCTATGCTAAAA
AATTTTTATTTTATTTTTTATAAATTGATTTATTTTTTGCGGCGTTTT
Found at i:27251583 original size:114 final size:114
Alignment explanation
Indices: 27251382--27251606 Score: 400
Period size: 114 Copynumber: 2.0 Consensus size: 114
27251372 TTTGCTTACC
*
27251382 TTTAGCGGCGTTTTTATGAGAAACGCCGCAAAAAAATTTTTCATTTTGAACAAAGTGACGCCGTT
1 TTTAGCGGCGTTTTTATGAGAAACGCCGCAAAAAAATTTTTCATTTTGAACAAAATGACGCCGTT
27251447 TTGCTATGCTAAAAATTTTTTA-TTTTATTTTTTATATATATTGATTTGTT
66 TTGCTATGCTAAAAATTTTTTATTTTTATTTTTTATA-A-ATTGATTTGTT
*
27251497 TTTAGTGGCGTTTTTATGAGAAACGCCGC-AAAAAATTTTTCATTTTGAACAAAATGACGCCGTT
1 TTTAGCGGCGTTTTTATGAGAAACGCCGCAAAAAAATTTTTCATTTTGAACAAAATGACGCCGTT
27251561 TTGCTATGCTAAAAATTTTTTATTTTTATTTTTTATAAATTGATTT
66 TTGCTATGCTAAAAATTTTTTATTTTTATTTTTTATAAATTGATTT
27251607 CTTATAATAA
Statistics
Matches: 107, Mismatches: 2, Indels: 4
0.95 0.02 0.04
Matches are distributed among these distances:
113 8 0.07
114 57 0.53
115 42 0.39
ACGTcount: A:0.29, C:0.11, G:0.14, T:0.45
Consensus pattern (114 bp):
TTTAGCGGCGTTTTTATGAGAAACGCCGCAAAAAAATTTTTCATTTTGAACAAAATGACGCCGTT
TTGCTATGCTAAAAATTTTTTATTTTTATTTTTTATAAATTGATTTGTT
Found at i:27252243 original size:14 final size:14
Alignment explanation
Indices: 27252225--27252266 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
27252215 AACCCTTAAA
27252225 CCATAATCCCTAAT
1 CCATAATCCCTAAT
*
27252239 TCATAATCCCTAAAT
1 CCATAATCCCT-AAT
*
27252254 CCATACTCCCTAA
1 CCATAATCCCTAA
27252267 ACCTTAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.36, C:0.36, G:0.00, T:0.29
Consensus pattern (14 bp):
CCATAATCCCTAAT
Found at i:27252263 original size:15 final size:15
Alignment explanation
Indices: 27252221--27252267 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
27252211 TCTCAACCCT
27252221 TAAA-CCATAATCCC
1 TAAATCCATAATCCC
*
27252235 T-AATTCATAATCCC
1 TAAATCCATAATCCC
*
27252249 TAAATCCATACTCCC
1 TAAATCCATAATCCC
27252264 TAAA
1 TAAA
27252268 CCTTAAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
13 2 0.07
14 11 0.39
15 15 0.54
ACGTcount: A:0.40, C:0.32, G:0.00, T:0.28
Consensus pattern (15 bp):
TAAATCCATAATCCC
Found at i:27252492 original size:30 final size:28
Alignment explanation
Indices: 27252452--27252507 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
27252442 CCCTAGCATG
*
27252452 TCTAACCCTTAAATCCCTAACCCTCTAACC
1 TCTAAACCTTAAATCCC-AACCC-CTAACC
*
27252482 TCTAAACCTTAAATTCCAACCCCTAA
1 TCTAAACCTTAAATCCCAACCCCTAA
27252508 TCCATAATCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.17
29 5 0.21
30 15 0.62
ACGTcount: A:0.34, C:0.39, G:0.00, T:0.27
Consensus pattern (28 bp):
TCTAAACCTTAAATCCCAACCCCTAACC
Found at i:27253158 original size:115 final size:113
Alignment explanation
Indices: 27252833--27253369 Score: 693
Period size: 114 Copynumber: 4.7 Consensus size: 113
27252823 AGCATTTTTG
**
27252833 GCCGCTAAATCCCTAAAAGCTCAA-AAAACGGCGTCGTTGGGCTTAGAATTTTTTGCGGCGCTTT
1 GCCGCTAAATCCCCGAAAGCT-AACAAAACGGCGTCGTTGGGCTTAG-ATTTTTTGCGGCGCTTT
*
27252897 CTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAAC
64 CTCAAAAACGCCGCTAAAGCCCTGAACATTAGCGGCGCTTTCTTAAAAAC
* * * * * *
27252947 GCCGCTAAATCCGCAAAAGCTCAGAAAACGGCGTCGTTGGGCTCAGGTTTTTTGCGGCGCTTTCT
1 GCCGCTAAATCCCCGAAAGCTAACAAAACGGCGTCGTTGGGCTTAGATTTTTTGCGGCGCTTTCT
*
27253012 AAAAAACGCCGCTAAAGCCCTGAACATTAGCGGCGCTTTCTTAAAAAAC
66 CAAAAACGCCGCTAAAGCCCTGAACATTAGCGGCGCTTTCTT-AAAAAC
* * * * *
27253061 GCCGCTAAATCCCCGAAAGCTAACAAAATGGTGTCGTTGGGTTTATGATTTCTTGCGGCG-TTTT
1 GCCGCTAAATCCCCGAAAGCTAACAAAACGGCGTCGTTGGGCTTA-GATTTTTTGCGGCGCTTTC
* * * *
27253125 TGAGGAAGCGCCGCTAAATCCCTGAACATTAGCGGCGCTTTAC-TAAAAAC
65 TCA-AAAACGCCGCTAAAGCCCTGAACATTAGCGGCGCTTT-CTTAAAAAC
* *
27253175 GCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTGGGCTTAAGTTTTTTTGCGGCGCTTTT
1 GCCGCTAAATCCCCGAAAGCTAACAAAACGGCGTCGTTGGGCTT-AGATTTTTTGCGGCGC-TTT
* * *
27253240 ATCAAAAACGCCGCTAAAGCCCTGAGCATTAGTGGCGCTTTCTTAAAAAC
64 CTCAAAAACGCCGCTAAAGCCCTGAACATTAGCGGCGCTTTCTTAAAAAC
* * **** * *
27253290 GCCACTAAACCCCCGAAAGCTTGGGAAACGGTGTCGTTGGGCTTAGGTTTTTTGCGGCGCTTTCT
1 GCCGCTAAATCCCCGAAAGCTAACAAAACGGCGTCGTTGGGCTTAGATTTTTTGCGGCGCTTTCT
27253355 CAAAAACGCCGCTAA
66 CAAAAACGCCGCTAA
27253370 TGCTTATTTT
Statistics
Matches: 370, Mismatches: 44, Indels: 19
0.85 0.10 0.04
Matches are distributed among these distances:
113 78 0.21
114 162 0.44
115 124 0.34
116 6 0.02
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (113 bp):
GCCGCTAAATCCCCGAAAGCTAACAAAACGGCGTCGTTGGGCTTAGATTTTTTGCGGCGCTTTCT
CAAAAACGCCGCTAAAGCCCTGAACATTAGCGGCGCTTTCTTAAAAAC
Found at i:27253455 original size:12 final size:12
Alignment explanation
Indices: 27253438--27253463 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
27253428 TTTTTTATCC
27253438 AAACGCCACTAA
1 AAACGCCACTAA
27253450 AAACGCCACTAA
1 AAACGCCACTAA
27253462 AA
1 AA
27253464 GCCTGTTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.31, G:0.08, T:0.08
Consensus pattern (12 bp):
AAACGCCACTAA
Found at i:27253606 original size:20 final size:20
Alignment explanation
Indices: 27253581--27253630 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
27253571 TCTTCAATTT
27253581 CTAAACT-AAACCCTAAAACC
1 CTAAACTCAAA-CCTAAAACC
*
27253601 CTAAACTCAAACCTTAAACC
1 CTAAACTCAAACCTAAAACC
*
27253621 CCAAACTCAA
1 CTAAACTCAA
27253631 TCTCTAACAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 24 0.89
21 3 0.11
ACGTcount: A:0.48, C:0.36, G:0.00, T:0.16
Consensus pattern (20 bp):
CTAAACTCAAACCTAAAACC
Found at i:27253689 original size:7 final size:7
Alignment explanation
Indices: 27253677--27253703 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
27253667 CAGTATGCCA
27253677 TAAACCC
1 TAAACCC
27253684 TAAACCC
1 TAAACCC
27253691 TAAACCC
1 TAAACCC
27253698 TAAACC
1 TAAACC
27253704 GTATACATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.41, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAACCC
Found at i:27254531 original size:72 final size:70
Alignment explanation
Indices: 27254436--27254635 Score: 197
Period size: 72 Copynumber: 2.8 Consensus size: 70
27254426 AGAAAGCTGA
* * *
27254436 GAAAACGACACCGTTTGGCTTAGGTTTTTTAGCGGCGCTTCCCCAAAAACGCCGCTAAAT-CCCA
1 GAAAACGGCACCGTTTGGCTTAGG-TTTTTAGCGGCGCTT-ACTAAAAACGCCGCTAAATCCCCA
27254500 AAAACTAC
64 AAAACT-C
* ** * * *
27254508 GGAAACGGCACCGTTTGGCTTAGGATGATTAGTGGCGCTTGATTAAAAACGTCGCTAAATCCCCA
1 GAAAACGGCACCGTTTGGCTTAGG-TTTTTAGCGGCGCTT-ACTAAAAACGCCGCTAAATCCCCA
*
27254573 AAAGCTC
64 AAAACTC
** * * *
27254580 GAAAACGGCGTCGTTAGGCTTTGGTTTTT-GCGGCGCTTTCTAGAAAACGCCGCTAA
1 GAAAACGGCACCGTTTGGCTTAGGTTTTTAGCGGCGCTTACTA-AAAACGCCGCTAA
27254636 TTCTTATTTT
Statistics
Matches: 103, Mismatches: 23, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
69 2 0.02
70 20 0.19
71 3 0.03
72 69 0.67
73 9 0.09
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.24
Consensus pattern (70 bp):
GAAAACGGCACCGTTTGGCTTAGGTTTTTAGCGGCGCTTACTAAAAACGCCGCTAAATCCCCAAA
AACTC
Found at i:27270151 original size:23 final size:25
Alignment explanation
Indices: 27270125--27270173 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 25
27270115 TTATTTTGAA
*
27270125 TTCAACTATTAT-AT-CATTTCAAT
1 TTCAACTATTATGATGCATATCAAT
*
27270148 TTCAAGTATTATGATGCATATCAAT
1 TTCAACTATTATGATGCATATCAAT
27270173 T
1 T
27270174 ACACATATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 11 0.50
24 2 0.09
25 9 0.41
ACGTcount: A:0.35, C:0.14, G:0.06, T:0.45
Consensus pattern (25 bp):
TTCAACTATTATGATGCATATCAAT
Found at i:27271864 original size:14 final size:15
Alignment explanation
Indices: 27271833--27271871 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
27271823 CAAACAACAT
27271833 AATATTTAATAATTAA
1 AATATTTAATAA-TAA
*
27271849 AATTTTTAATAA-AA
1 AATATTTAATAATAA
27271863 AATATTTAA
1 AATATTTAA
27271872 ATTATAAGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 10 0.48
16 11 0.52
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
AATATTTAATAATAA
Found at i:27276373 original size:20 final size:20
Alignment explanation
Indices: 27276348--27276389 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
27276338 ACTTTCTAAA
27276348 TATATGTTTCTTAATTGACT
1 TATATGTTTCTTAATTGACT
27276368 TATATGTTTCTTAATTGACT
1 TATATGTTTCTTAATTGACT
27276388 TA
1 TA
27276390 ATAACAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.26, C:0.10, G:0.10, T:0.55
Consensus pattern (20 bp):
TATATGTTTCTTAATTGACT
Found at i:27277865 original size:10 final size:10
Alignment explanation
Indices: 27277850--27277889 Score: 53
Period size: 10 Copynumber: 3.7 Consensus size: 10
27277840 TAATTGAAGA
27277850 TAAATAAAAT
1 TAAATAAAAT
27277860 TAAATAAAAT
1 TAAATAAAAT
27277870 TAAATCCTAAAAT
1 TAAA---TAAAAT
27277883 TAAATAA
1 TAAATAA
27277890 TCCTTAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 17 0.63
13 10 0.37
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (10 bp):
TAAATAAAAT
Found at i:27277917 original size:15 final size:15
Alignment explanation
Indices: 27277897--27277926 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
27277887 TAATCCTTAA
*
27277897 TAATTATCTTAATAT
1 TAATTATCCTAATAT
27277912 TAATTATCCTAATAT
1 TAATTATCCTAATAT
27277927 AATAAAAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:27278682 original size:24 final size:24
Alignment explanation
Indices: 27278655--27278700 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
27278645 CTAATTAAAT
* *
27278655 TTTATAAAGAATTAATATTTATTG
1 TTTAAAAAGAATTAAAATTTATTG
* *
27278679 TTTAAAAATATTTAAAATTTAT
1 TTTAAAAAGAATTAAAATTTAT
27278701 ATTTCATATA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (24 bp):
TTTAAAAAGAATTAAAATTTATTG
Found at i:27280361 original size:18 final size:18
Alignment explanation
Indices: 27280338--27280377 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
27280328 ATTTTTTAAG
*
27280338 AAAAGACATAGAACACAA
1 AAAAGACATAAAACACAA
* *
27280356 AAAAGATATAAAATACAA
1 AAAAGACATAAAACACAA
27280374 AAAA
1 AAAA
27280378 TTATTAAGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.72, C:0.10, G:0.07, T:0.10
Consensus pattern (18 bp):
AAAAGACATAAAACACAA
Found at i:27280702 original size:128 final size:128
Alignment explanation
Indices: 27280473--27280707 Score: 341
Period size: 128 Copynumber: 1.8 Consensus size: 128
27280463 AAAATAATAC
*
27280473 TTTTCTGTTAAAAATATAATTTTTTTTAAAAAAAGTGCGAAAATACAAAAAGTGTAAAAAATTCA
1 TTTTCTGTTAAAAATATAATTTTTTTT--AAAAAGTGCGAAAATACAAAAAGTGTAAAAAAATCA
* * *
27280538 GAAAAATCTAAAAAAAAACAAATCAGAAAAAAAATATTGAAACTAATATAAAGTTTCTAGAATTT
64 GAAAAATATAAAAAAAAACAAATAAGAAAAAAAATATGGAAACTAATATAAAGTTTCTAGAATTT
* *
27280603 TTTTTTGTTAAAAATATACTCTTTTTTT-AAAAGTGCGAAAATACAAAAAGTGTAAAAAAATCAG
1 TTTTCTGTTAAAAATATAAT-TTTTTTTAAAAAGTGCGAAAATACAAAAAGTGTAAAAAAATCAG
*
27280667 AAAAATATAAAAAAATATA-AAATAAG-AAAAGAATATGGAAA
65 AAAAATATAAAAAAA-A-ACAAATAAGAAAAAAAATATGGAAA
27280708 ACTTTAAAAT
Statistics
Matches: 95, Mismatches: 7, Indels: 8
0.86 0.06 0.07
Matches are distributed among these distances:
128 62 0.65
129 7 0.07
130 19 0.20
131 7 0.07
ACGTcount: A:0.55, C:0.06, G:0.09, T:0.29
Consensus pattern (128 bp):
TTTTCTGTTAAAAATATAATTTTTTTTAAAAAGTGCGAAAATACAAAAAGTGTAAAAAAATCAGA
AAAATATAAAAAAAAACAAATAAGAAAAAAAATATGGAAACTAATATAAAGTTTCTAGAATTT
Done.